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Conserved domains on  [gi|2462533321|ref|XP_054228683|]
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ATP-dependent RNA helicase DDX55 isoform X17 [Homo sapiens]

Protein Classification

DEAD/DEAH box helicase( domain architecture ID 13371497)

DEAD/DEAH box containing ATP-dependent helicase catalyzes the unwinding of DNA or RNA

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
SrmB super family cl33924
Superfamily II DNA and RNA helicase [Replication, recombination and repair];
21-323 1.85e-82

Superfamily II DNA and RNA helicase [Replication, recombination and repair];


The actual alignment was detected with superfamily member COG0513:

Pssm-ID: 440279 [Multi-domain]  Cd Length: 420  Bit Score: 256.61  E-value: 1.85e-82
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  21 IGGRNPGEDVERFKQqGGNIIVATPGRLEDMFRRKAegLDLascvRSLDVLVLDEADRLLDMGFEASINTILEFLPKQRR 100
Cdd:COG0513   106 YGGVSIGRQIRALKR-GVDIVVATPGRLLDLIERGA--LDL----SGVETLVLDEADRMLDMGFIEDIERILKLLPKERQ 178
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321 101 TGLFSATQTQEVENLVRAGLRNPVRVSVKEKgvaassaQKTPSRLENYYMVCKADEKFNQLVHFLRNHKQEKHLVFFSTC 180
Cdd:COG0513   179 TLLFSATMPPEIRKLAKRYLKNPVRIEVAPE-------NATAETIEQRYYLVDKRDKLELLRRLLRDEDPERAIVFCNTK 251
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321 181 ACVEYYGKALEVlvKGVKIMCIHGKM-KYKRNKIFMEFRKLQSGILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRC 259
Cdd:COG0513   252 RGADRLAEKLQK--RGISAAALHGDLsQGQRERALDAFRNGKIRVLVATDVAARGIDIDDVSHVINYDLPEDPEDYVHRI 329
                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2462533321 260 GRTARIGHGGSALVFLLPMEESYINFL--AINQKCPLQEMKP-----QRNTADLLPKLKSMALADRAVFEK 323
Cdd:COG0513   330 GRTGRAGAEGTAISLVTPDERRLLRAIekLIGQKIEEEELPGfepveEKRLERLKPKIKEKLKGKKAGRGG 400
DUF4217 pfam13959
Domain of unknown function (DUF4217); This short domain is found at the C-terminus of many ...
308-349 5.94e-13

Domain of unknown function (DUF4217); This short domain is found at the C-terminus of many helicase proteins.


:

Pssm-ID: 464056 [Multi-domain]  Cd Length: 59  Bit Score: 62.80  E-value: 5.94e-13
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 2462533321 308 PKLKSMALADRAVFEKGMKAFVSYVQAYAKHECNLIFRLKAL 349
Cdd:pfam13959   2 LQLEKLVLKDRELKELAQKAFVSYVRAYSKHLAKSIFNVKKL 43
 
Name Accession Description Interval E-value
SrmB COG0513
Superfamily II DNA and RNA helicase [Replication, recombination and repair];
21-323 1.85e-82

Superfamily II DNA and RNA helicase [Replication, recombination and repair];


Pssm-ID: 440279 [Multi-domain]  Cd Length: 420  Bit Score: 256.61  E-value: 1.85e-82
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  21 IGGRNPGEDVERFKQqGGNIIVATPGRLEDMFRRKAegLDLascvRSLDVLVLDEADRLLDMGFEASINTILEFLPKQRR 100
Cdd:COG0513   106 YGGVSIGRQIRALKR-GVDIVVATPGRLLDLIERGA--LDL----SGVETLVLDEADRMLDMGFIEDIERILKLLPKERQ 178
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321 101 TGLFSATQTQEVENLVRAGLRNPVRVSVKEKgvaassaQKTPSRLENYYMVCKADEKFNQLVHFLRNHKQEKHLVFFSTC 180
Cdd:COG0513   179 TLLFSATMPPEIRKLAKRYLKNPVRIEVAPE-------NATAETIEQRYYLVDKRDKLELLRRLLRDEDPERAIVFCNTK 251
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321 181 ACVEYYGKALEVlvKGVKIMCIHGKM-KYKRNKIFMEFRKLQSGILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRC 259
Cdd:COG0513   252 RGADRLAEKLQK--RGISAAALHGDLsQGQRERALDAFRNGKIRVLVATDVAARGIDIDDVSHVINYDLPEDPEDYVHRI 329
                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2462533321 260 GRTARIGHGGSALVFLLPMEESYINFL--AINQKCPLQEMKP-----QRNTADLLPKLKSMALADRAVFEK 323
Cdd:COG0513   330 GRTGRAGAEGTAISLVTPDERRLLRAIekLIGQKIEEEELPGfepveEKRLERLKPKIKEKLKGKKAGRGG 400
DEADc_DDX55 cd17960
DEAD-box helicase domain of DEAD box protein 55; DDX55 is a member of the DEAD-box helicases, ...
16-127 3.87e-64

DEAD-box helicase domain of DEAD box protein 55; DDX55 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350718 [Multi-domain]  Cd Length: 202  Bit Score: 202.42  E-value: 3.87e-64
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  16 SQILWIGGRNPGEDVERFKQQGGNIIVATPGRLEDMFRRKAEgldlASCVRSLDVLVLDEADRLLDMGFEASINTILEFL 95
Cdd:cd17960    95 KCQLLIGGTNVEEDVKKFKRNGPNILVGTPGRLEELLSRKAD----KVKVKSLEVLVLDEADRLLDLGFEADLNRILSKL 170
                          90       100       110
                  ....*....|....*....|....*....|..
gi 2462533321  96 PKQRRTGLFSATQTQEVENLVRAGLRNPVRVS 127
Cdd:cd17960   171 PKQRRTGLFSATQTDAVEELIKAGLRNPVRVV 202
PRK11776 PRK11776
ATP-dependent RNA helicase DbpA; Provisional
35-310 3.32e-48

ATP-dependent RNA helicase DbpA; Provisional


Pssm-ID: 236977 [Multi-domain]  Cd Length: 460  Bit Score: 168.83  E-value: 3.32e-48
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  35 QQGGNIIVATPGRLEDMFRRkaEGLDLAScvrsLDVLVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVEN 114
Cdd:PRK11776  121 EHGAHIIVGTPGRILDHLRK--GTLDLDA----LNTLVLDEADRMLDMGFQDAIDAIIRQAPARRQTLLFSATYPEGIAA 194
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321 115 LVRAGLRNPVRVSVKEKGVAassaqktpSRLENYYMVCKADEKFNQLVHFLRNHKQEKHLVFFSTCA-CVEYYgKALEvl 193
Cdd:PRK11776  195 ISQRFQRDPVEVKVESTHDL--------PAIEQRFYEVSPDERLPALQRLLLHHQPESCVVFCNTKKeCQEVA-DALN-- 263
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321 194 VKGVKIMCIHGKM-KYKRNKIFMEFRKLQSGILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSAL 272
Cdd:PRK11776  264 AQGFSALALHGDLeQRDRDQVLVRFANRSCSVLVATDVAARGLDIKALEAVINYELARDPEVHVHRIGRTGRAGSKGLAL 343
                         250       260       270       280
                  ....*....|....*....|....*....|....*....|...
gi 2462533321 273 VFLLPMEESYINFLAINQKCPLQ-----EMKPqRNTADLLPKL 310
Cdd:PRK11776  344 SLVAPEEMQRANAIEDYLGRKLNweplpSLSP-LSGVPLLPEM 385
Helicase_C pfam00271
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ...
156-266 2.85e-29

Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, whereas this domain family is found in a wide variety of helicases and helicase related proteins. It may be that this is not an autonomously folding unit, but an integral part of the helicase.


Pssm-ID: 459740 [Multi-domain]  Cd Length: 109  Bit Score: 108.84  E-value: 2.85e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321 156 EKFNQLVHFLRNHKQEKHLVFFSTCACVEYygKALEVLvKGVKIMCIHGKMKYK-RNKIFMEFRKLQSGILVCTDVMARG 234
Cdd:pfam00271   1 EKLEALLELLKKERGGKVLIFSQTKKTLEA--ELLLEK-EGIKVARLHGDLSQEeREEILEDFRKGKIDVLVATDVAERG 77
                          90       100       110
                  ....*....|....*....|....*....|..
gi 2462533321 235 IDIPEVNWVLQYDPPSNASAFVHRCGRTARIG 266
Cdd:pfam00271  78 LDLPDVDLVINYDLPWNPASYIQRIGRAGRAG 109
HELICc smart00490
helicase superfamily c-terminal domain;
195-266 1.40e-23

helicase superfamily c-terminal domain;


Pssm-ID: 197757 [Multi-domain]  Cd Length: 82  Bit Score: 92.66  E-value: 1.40e-23
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2462533321  195 KGVKIMCIHGKMKYK-RNKIFMEFRKLQSGILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIG 266
Cdd:smart00490  10 LGIKVARLHGGLSQEeREEILDKFNNGKIKVLVATDVAERGLDLPGVDLVIIYDLPWSPASYIQRIGRAGRAG 82
DUF4217 pfam13959
Domain of unknown function (DUF4217); This short domain is found at the C-terminus of many ...
308-349 5.94e-13

Domain of unknown function (DUF4217); This short domain is found at the C-terminus of many helicase proteins.


Pssm-ID: 464056 [Multi-domain]  Cd Length: 59  Bit Score: 62.80  E-value: 5.94e-13
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 2462533321 308 PKLKSMALADRAVFEKGMKAFVSYVQAYAKHECNLIFRLKAL 349
Cdd:pfam13959   2 LQLEKLVLKDRELKELAQKAFVSYVRAYSKHLAKSIFNVKKL 43
mfd TIGR00580
transcription-repair coupling factor (mfd); All proteins in this family for which functions ...
183-241 1.92e-06

transcription-repair coupling factor (mfd); All proteins in this family for which functions are known are DNA-dependent ATPases that function in the process of transcription-coupled DNA repair in which the repair of the transcribed strand of actively transcribed genes is repaired at a higher rate than the repair of non-transcribed regions of the genome and than the non-transcribed strand of the same gene. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). This family is closely related to the RecG and UvrB families. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273152 [Multi-domain]  Cd Length: 926  Bit Score: 49.66  E-value: 1.92e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321 183 VEYYGKALEVLVKGVKIMCIHGKM-KYKRNKIFMEFRKLQSGILVCTDVMARGIDIPEVN 241
Cdd:TIGR00580 673 IEKLATQLRELVPEARIAIAHGQMtENELEEVMLEFYKGEFQVLVCTTIIETGIDIPNAN 732
 
Name Accession Description Interval E-value
SrmB COG0513
Superfamily II DNA and RNA helicase [Replication, recombination and repair];
21-323 1.85e-82

Superfamily II DNA and RNA helicase [Replication, recombination and repair];


Pssm-ID: 440279 [Multi-domain]  Cd Length: 420  Bit Score: 256.61  E-value: 1.85e-82
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  21 IGGRNPGEDVERFKQqGGNIIVATPGRLEDMFRRKAegLDLascvRSLDVLVLDEADRLLDMGFEASINTILEFLPKQRR 100
Cdd:COG0513   106 YGGVSIGRQIRALKR-GVDIVVATPGRLLDLIERGA--LDL----SGVETLVLDEADRMLDMGFIEDIERILKLLPKERQ 178
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321 101 TGLFSATQTQEVENLVRAGLRNPVRVSVKEKgvaassaQKTPSRLENYYMVCKADEKFNQLVHFLRNHKQEKHLVFFSTC 180
Cdd:COG0513   179 TLLFSATMPPEIRKLAKRYLKNPVRIEVAPE-------NATAETIEQRYYLVDKRDKLELLRRLLRDEDPERAIVFCNTK 251
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321 181 ACVEYYGKALEVlvKGVKIMCIHGKM-KYKRNKIFMEFRKLQSGILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRC 259
Cdd:COG0513   252 RGADRLAEKLQK--RGISAAALHGDLsQGQRERALDAFRNGKIRVLVATDVAARGIDIDDVSHVINYDLPEDPEDYVHRI 329
                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2462533321 260 GRTARIGHGGSALVFLLPMEESYINFL--AINQKCPLQEMKP-----QRNTADLLPKLKSMALADRAVFEK 323
Cdd:COG0513   330 GRTGRAGAEGTAISLVTPDERRLLRAIekLIGQKIEEEELPGfepveEKRLERLKPKIKEKLKGKKAGRGG 400
DEADc_DDX55 cd17960
DEAD-box helicase domain of DEAD box protein 55; DDX55 is a member of the DEAD-box helicases, ...
16-127 3.87e-64

DEAD-box helicase domain of DEAD box protein 55; DDX55 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350718 [Multi-domain]  Cd Length: 202  Bit Score: 202.42  E-value: 3.87e-64
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  16 SQILWIGGRNPGEDVERFKQQGGNIIVATPGRLEDMFRRKAEgldlASCVRSLDVLVLDEADRLLDMGFEASINTILEFL 95
Cdd:cd17960    95 KCQLLIGGTNVEEDVKKFKRNGPNILVGTPGRLEELLSRKAD----KVKVKSLEVLVLDEADRLLDLGFEADLNRILSKL 170
                          90       100       110
                  ....*....|....*....|....*....|..
gi 2462533321  96 PKQRRTGLFSATQTQEVENLVRAGLRNPVRVS 127
Cdd:cd17960   171 PKQRRTGLFSATQTDAVEELIKAGLRNPVRVV 202
SF2_C_DEAD cd18787
C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse ...
145-275 1.26e-51

C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis, and RNA degradation. They are superfamily (SF)2 helicases that, similar to SF1, do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350174 [Multi-domain]  Cd Length: 131  Bit Score: 167.68  E-value: 1.26e-51
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321 145 LENYYMVCKADEKFNQL-VHFLRNHKQEKHLVFFSTCACVEYYGKALEVLvkGVKIMCIHGKMKYK-RNKIFMEFRKLQS 222
Cdd:cd18787     1 IKQLYVVVEEEEKKLLLlLLLLEKLKPGKAIIFVNTKKRVDRLAELLEEL--GIKVAALHGDLSQEeRERALKKFRSGKV 78
                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|...
gi 2462533321 223 GILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSALVFL 275
Cdd:cd18787    79 RVLVATDVAARGLDIPGVDHVINYDLPRDAEDYVHRIGRTGRAGRKGTAITFV 131
PRK11776 PRK11776
ATP-dependent RNA helicase DbpA; Provisional
35-310 3.32e-48

ATP-dependent RNA helicase DbpA; Provisional


Pssm-ID: 236977 [Multi-domain]  Cd Length: 460  Bit Score: 168.83  E-value: 3.32e-48
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  35 QQGGNIIVATPGRLEDMFRRkaEGLDLAScvrsLDVLVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVEN 114
Cdd:PRK11776  121 EHGAHIIVGTPGRILDHLRK--GTLDLDA----LNTLVLDEADRMLDMGFQDAIDAIIRQAPARRQTLLFSATYPEGIAA 194
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321 115 LVRAGLRNPVRVSVKEKGVAassaqktpSRLENYYMVCKADEKFNQLVHFLRNHKQEKHLVFFSTCA-CVEYYgKALEvl 193
Cdd:PRK11776  195 ISQRFQRDPVEVKVESTHDL--------PAIEQRFYEVSPDERLPALQRLLLHHQPESCVVFCNTKKeCQEVA-DALN-- 263
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321 194 VKGVKIMCIHGKM-KYKRNKIFMEFRKLQSGILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSAL 272
Cdd:PRK11776  264 AQGFSALALHGDLeQRDRDQVLVRFANRSCSVLVATDVAARGLDIKALEAVINYELARDPEVHVHRIGRTGRAGSKGLAL 343
                         250       260       270       280
                  ....*....|....*....|....*....|....*....|...
gi 2462533321 273 VFLLPMEESYINFLAINQKCPLQ-----EMKPqRNTADLLPKL 310
Cdd:PRK11776  344 SLVAPEEMQRANAIEDYLGRKLNweplpSLSP-LSGVPLLPEM 385
PTZ00110 PTZ00110
helicase; Provisional
35-277 1.89e-41

helicase; Provisional


Pssm-ID: 240273 [Multi-domain]  Cd Length: 545  Bit Score: 152.23  E-value: 1.89e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  35 QQGGNIIVATPGRLEDMFRRKAEGLdlascvRSLDVLVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVEN 114
Cdd:PTZ00110  251 RRGVEILIACPGRLIDFLESNVTNL------RRVTYLVLDEADRMLDMGFEPQIRKIVSQIRPDRQTLMWSATWPKEVQS 324
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321 115 LVRAGLRN-PVRVSVkekgvaASSAQKTPSRLENYYMVCKADEKFNQLVHFLRN--HKQEKHLVFFSTCACVEYYGKALE 191
Cdd:PTZ00110  325 LARDLCKEePVHVNV------GSLDLTACHNIKQEVFVVEEHEKRGKLKMLLQRimRDGDKILIFVETKKGADFLTKELR 398
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321 192 VlvKGVKIMCIHG-KMKYKRNKIFMEFRKLQSGILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGS 270
Cdd:PTZ00110  399 L--DGWPALCIHGdKKQEERTWVLNEFKTGKSPIMIATDVASRGLDVKDVKYVINFDFPNQIEDYVHRIGRTGRAGAKGA 476

                  ....*..
gi 2462533321 271 ALVFLLP 277
Cdd:PTZ00110  477 SYTFLTP 483
PRK11192 PRK11192
ATP-dependent RNA helicase SrmB; Provisional
22-311 2.51e-40

ATP-dependent RNA helicase SrmB; Provisional


Pssm-ID: 236877 [Multi-domain]  Cd Length: 434  Bit Score: 147.01  E-value: 2.51e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  22 GGRNPGEDVERF-KQQggNIIVATPGRLedMFRRKAEGLDLascvRSLDVLVLDEADRLLDMGFEASINTILEFLPKQRR 100
Cdd:PRK11192  109 GGVAYMNHAEVFsENQ--DIVVATPGRL--LQYIKEENFDC----RAVETLILDEADRMLDMGFAQDIETIAAETRWRKQ 180
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321 101 TGLFSATQTQE-VENLVRAGLRNPVRVSVKekgvaassaqktPSRLEN------YYMVCKADEKFNQLVHFLRNHKQEKH 173
Cdd:PRK11192  181 TLLFSATLEGDaVQDFAERLLNDPVEVEAE------------PSRRERkkihqwYYRADDLEHKTALLCHLLKQPEVTRS 248
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321 174 LVFFSTCACVEYYGKALEVlvKGVKIMCIHGKM-KYKRNKIFMEFRKLQSGILVCTDVMARGIDIPEVNWVLQYDPPSNA 252
Cdd:PRK11192  249 IVFVRTRERVHELAGWLRK--AGINCCYLEGEMvQAKRNEAIKRLTDGRVNVLVATDVAARGIDIDDVSHVINFDMPRSA 326
                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2462533321 253 SAFVHRCGRTARIGHGGSALVF-------LLPMEESYINflainqkcplQEMKPqRNTADLLPKLK 311
Cdd:PRK11192  327 DTYLHRIGRTGRAGRKGTAISLveahdhlLLGKIERYIE----------EPLKA-RVIDELRPKTK 381
PRK04537 PRK04537
ATP-dependent RNA helicase RhlB; Provisional
35-310 2.98e-40

ATP-dependent RNA helicase RhlB; Provisional


Pssm-ID: 235307 [Multi-domain]  Cd Length: 572  Bit Score: 149.33  E-value: 2.98e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  35 QQGGNIIVATPGRLEDmFRRKAEGLDLASCvrslDVLVLDEADRLLDMGFEASINTILEFLPKQ--RRTGLFSATQTQEV 112
Cdd:PRK04537  132 QQGVDVIIATPGRLID-YVKQHKVVSLHAC----EICVLDEADRMFDLGFIKDIRFLLRRMPERgtRQTLLFSATLSHRV 206
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321 113 ENLVRAGLRNPVRVSVKEKGVaassaqkTPSRLENYYMVCKADEKFNQLVHFLRNHKQEKHLVFFSTCACVEYYGKALEV 192
Cdd:PRK04537  207 LELAYEHMNEPEKLVVETETI-------TAARVRQRIYFPADEEKQTLLLGLLSRSEGARTMVFVNTKAFVERVARTLER 279
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321 193 lvKGVKIMCIHGKM-KYKRNKIFMEFRKLQSGILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSA 271
Cdd:PRK04537  280 --HGYRVGVLSGDVpQKKRESLLNRFQKGQLEILVATDVAARGLHIDGVKYVYNYDLPFDAEDYVHRIGRTARLGEEGDA 357
                         250       260       270       280
                  ....*....|....*....|....*....|....*....|....*.
gi 2462533321 272 LVFL-------LPMEESYinflaINQKCPLQEMkpqrnTADLLPKL 310
Cdd:PRK04537  358 ISFAceryamsLPDIEAY-----IEQKIPVEPV-----TAELLTPL 393
PRK01297 PRK01297
ATP-dependent RNA helicase RhlB; Provisional
39-275 2.23e-38

ATP-dependent RNA helicase RhlB; Provisional


Pssm-ID: 234938 [Multi-domain]  Cd Length: 475  Bit Score: 142.74  E-value: 2.23e-38
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  39 NIIVATPGRLEDMFRRKAEGLDLascvrsLDVLVLDEADRLLDMGFEASINTILEFLPK--QRRTGLFSATQTQEVENLV 116
Cdd:PRK01297  215 DILVATPGRLLDFNQRGEVHLDM------VEVMVLDEADRMLDMGFIPQVRQIIRQTPRkeERQTLLFSATFTDDVMNLA 288
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321 117 RAGLRNPVRVSVKEKGVAASSAQktpsrlENYYMVCKADeKFNQLVHFLRNHKQEKHLVFFSTCACVEyygKALEVLVK- 195
Cdd:PRK01297  289 KQWTTDPAIVEIEPENVASDTVE------QHVYAVAGSD-KYKLLYNLVTQNPWERVMVFANRKDEVR---RIEERLVKd 358
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321 196 GVKIMCIHGKM-KYKRNKIFMEFRKLQSGILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSALVF 274
Cdd:PRK01297  359 GINAAQLSGDVpQHKRIKTLEGFREGKIRVLVATDVAGRGIHIDGISHVINFTLPEDPDDYVHRIGRTGRAGASGVSISF 438

                  .
gi 2462533321 275 L 275
Cdd:PRK01297  439 A 439
PTZ00424 PTZ00424
helicase 45; Provisional
21-279 6.18e-38

helicase 45; Provisional


Pssm-ID: 185609 [Multi-domain]  Cd Length: 401  Bit Score: 139.96  E-value: 6.18e-38
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  21 IGGRNPGEDVERFKQqGGNIIVATPGRLEDMFRRKAEGLDlascvrSLDVLVLDEADRLLDMGFEASINTILEFLPKQRR 100
Cdd:PTZ00424  131 VGGTVVRDDINKLKA-GVHMVVGTPGRVYDMIDKRHLRVD------DLKLFILDEADEMLSRGFKGQIYDVFKKLPPDVQ 203
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321 101 TGLFSATQTQEVENLVRAGLRNPVRVSVKEKgvaassaQKTPSRLENYYMVCKADE-KFNQLVHFLRNHKQEKHLVFFST 179
Cdd:PTZ00424  204 VALFSATMPNEILELTTKFMRDPKRILVKKD-------ELTLEGIRQFYVAVEKEEwKFDTLCDLYETLTITQAIIYCNT 276
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321 180 CACVEYYGKALEVlvKGVKIMCIHGKMKYK-RNKIFMEFRKLQSGILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHR 258
Cdd:PTZ00424  277 RRKVDYLTKKMHE--RDFTVSCMHGDMDQKdRDLIMREFRSGSTRVLITTDLLARGIDVQQVSLVINYDLPASPENYIHR 354
                         250       260
                  ....*....|....*....|.
gi 2462533321 259 CGRTARIGHGGSALVFLLPME 279
Cdd:PTZ00424  355 IGRSGRFGRKGVAINFVTPDD 375
DEADc cd00268
DEAD-box helicase domain of DEAD box helicases; DEAD-box helicases comprise a diverse family ...
19-127 9.35e-35

DEAD-box helicase domain of DEAD box helicases; DEAD-box helicases comprise a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350669 [Multi-domain]  Cd Length: 196  Bit Score: 126.02  E-value: 9.35e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  19 LWIGGRNPGEDVERFKQqGGNIIVATPGRLEDMFRRKAegLDLascvRSLDVLVLDEADRLLDMGFEASINTILEFLPKQ 98
Cdd:cd00268    95 AIYGGAPIKKQIEALKK-GPDIVVGTPGRLLDLIERGK--LDL----SNVKYLVLDEADRMLDMGFEEDVEKILSALPKD 167
                          90       100
                  ....*....|....*....|....*....
gi 2462533321  99 RRTGLFSATQTQEVENLVRAGLRNPVRVS 127
Cdd:cd00268   168 RQTLLFSATLPEEVKELAKKFLKNPVRIE 196
PRK11634 PRK11634
ATP-dependent RNA helicase DeaD; Provisional
29-275 4.00e-34

ATP-dependent RNA helicase DeaD; Provisional


Pssm-ID: 236941 [Multi-domain]  Cd Length: 629  Bit Score: 132.66  E-value: 4.00e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  29 DVE-RFKQQGGNIIVATPGRLEDMFRRKAegLDLAScvrsLDVLVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSAT 107
Cdd:PRK11634  116 DVQlRALRQGPQIVVGTPGRLLDHLKRGT--LDLSK----LSGLVLDEADEMLRMGFIEDVETIMAQIPEGHQTALFSAT 189
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321 108 QTQEVENLVRAGLRNPVRVSVKekgvaaSSAQKTPSRLENYYMVcKADEKFNQLVHFLRNHKQEKHLVFFSTCACVEYYG 187
Cdd:PRK11634  190 MPEAIRRITRRFMKEPQEVRIQ------SSVTTRPDISQSYWTV-WGMRKNEALVRFLEAEDFDAAIIFVRTKNATLEVA 262
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321 188 KALEVlvKGVKIMCIHGKMkykrNKIFME--FRKLQSG---ILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRT 262
Cdd:PRK11634  263 EALER--NGYNSAALNGDM----NQALREqtLERLKDGrldILIATDVAARGLDVERISLVVNYDIPMDSESYVHRIGRT 336
                         250
                  ....*....|...
gi 2462533321 263 ARIGHGGSALVFL 275
Cdd:PRK11634  337 GRAGRAGRALLFV 349
PRK10590 PRK10590
ATP-dependent RNA helicase RhlE; Provisional
34-272 8.78e-34

ATP-dependent RNA helicase RhlE; Provisional


Pssm-ID: 236722 [Multi-domain]  Cd Length: 456  Bit Score: 129.93  E-value: 8.78e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  34 KQQGG-NIIVATPGRLEDMFRRKAEGLDlascvrSLDVLVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEV 112
Cdd:PRK10590  121 KLRGGvDVLVATPGRLLDLEHQNAVKLD------QVEILVLDEADRMLDMGFIHDIRRVLAKLPAKRQNLLFSATFSDDI 194
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321 113 ENLVRAGLRNPVRVSVKEKGVAAssaqktpsrlenyymvckadEKFNQLVHFL-RNHKQE------------KHLVFFST 179
Cdd:PRK10590  195 KALAEKLLHNPLEIEVARRNTAS--------------------EQVTQHVHFVdKKRKREllsqmigkgnwqQVLVFTRT 254
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321 180 CACVEYYGKALEvlVKGVKIMCIHG-KMKYKRNKIFMEFRKLQSGILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHR 258
Cdd:PRK10590  255 KHGANHLAEQLN--KDGIRSAAIHGnKSQGARTRALADFKSGDIRVLVATDIAARGLDIEELPHVVNYELPNVPEDYVHR 332
                         250
                  ....*....|....
gi 2462533321 259 CGRTARIGHGGSAL 272
Cdd:PRK10590  333 IGRTGRAAATGEAL 346
DEADc_DDX10 cd17941
DEAD-box helicase domain of DEAD box protein 10; Fusion of the DDX10 gene and the nucleoporin ...
19-128 3.77e-30

DEAD-box helicase domain of DEAD box protein 10; Fusion of the DDX10 gene and the nucleoporin gene, NUP98, by inversion 11 (p15q22) chromosome translocation is found in the patients with de novo or therapy-related myeloid malignancies. Diseases associated with DDX10 (also known as DDX10-NUP98 Fusion Protein Type 2) include myelodysplastic syndrome and leukemia, acute myeloid. DDX10 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350699 [Multi-domain]  Cd Length: 198  Bit Score: 113.92  E-value: 3.77e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  19 LWIGGRNPGEDVERFKQQggNIIVATPGR-LEDMfrRKAEGLDLAScvrsLDVLVLDEADRLLDMGFEASINTILEFLPK 97
Cdd:cd17941    95 LIIGGKDVKEEKERINRM--NILVCTPGRlLQHM--DETPGFDTSN----LQMLVLDEADRILDMGFKETLDAIVENLPK 166
                          90       100       110
                  ....*....|....*....|....*....|.
gi 2462533321  98 QRRTGLFSATQTQEVENLVRAGLRNPVRVSV 128
Cdd:cd17941   167 SRQTLLFSATQTKSVKDLARLSLKNPEYISV 197
DEADc_MSS116 cd17964
DEAD-box helicase domain of DEAD-box helicase Mss116; Mss116 is an RNA chaperone important for ...
21-121 7.20e-30

DEAD-box helicase domain of DEAD-box helicase Mss116; Mss116 is an RNA chaperone important for mitochondrial group I and II intron splicing, translational activation, and RNA end processing. Mss116 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350722 [Multi-domain]  Cd Length: 211  Bit Score: 113.45  E-value: 7.20e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  21 IGGRNPGEDVERFKQQGGNIIVATPGRLEDMFRRKAEGLDLascvRSLDVLVLDEADRLLDMGFEASINTILEFLPK--- 97
Cdd:cd17964   104 VGGTSRRAELNRLRRGRPDILVATPGRLIDHLENPGVAKAF----TDLDYLVLDEADRLLDMGFRPDLEQILRHLPEkna 179
                          90       100
                  ....*....|....*....|....*
gi 2462533321  98 -QRRTGLFSATQTQEVENLVRAGLR 121
Cdd:cd17964   180 dPRQTLLFSATVPDEVQQIARLTLK 204
DEADc_DDX47 cd17954
DEAD-box helicase domain of DEAD box protein 47; DDX47 (also called E4-DEAD box protein) can ...
40-127 2.60e-29

DEAD-box helicase domain of DEAD box protein 47; DDX47 (also called E4-DEAD box protein) can shuttle between the nucleus and the cytoplasm, and has an RNA-independent ATPase activity. DX47 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350712 [Multi-domain]  Cd Length: 203  Bit Score: 112.02  E-value: 2.60e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  40 IIVATPGRLEDMFRRkAEGLDLascvRSLDVLVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAG 119
Cdd:cd17954   121 VIVATPGRLVDHLEN-TKGFSL----KSLKFLVMDEADRLLNMDFEPEIDKILKVIPRERTTYLFSATMTTKVAKLQRAS 195

                  ....*...
gi 2462533321 120 LRNPVRVS 127
Cdd:cd17954   196 LKNPVKIE 203
Helicase_C pfam00271
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ...
156-266 2.85e-29

Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, whereas this domain family is found in a wide variety of helicases and helicase related proteins. It may be that this is not an autonomously folding unit, but an integral part of the helicase.


Pssm-ID: 459740 [Multi-domain]  Cd Length: 109  Bit Score: 108.84  E-value: 2.85e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321 156 EKFNQLVHFLRNHKQEKHLVFFSTCACVEYygKALEVLvKGVKIMCIHGKMKYK-RNKIFMEFRKLQSGILVCTDVMARG 234
Cdd:pfam00271   1 EKLEALLELLKKERGGKVLIFSQTKKTLEA--ELLLEK-EGIKVARLHGDLSQEeREEILEDFRKGKIDVLVATDVAERG 77
                          90       100       110
                  ....*....|....*....|....*....|..
gi 2462533321 235 IDIPEVNWVLQYDPPSNASAFVHRCGRTARIG 266
Cdd:pfam00271  78 LDLPDVDLVINYDLPWNPASYIQRIGRAGRAG 109
PRK04837 PRK04837
ATP-dependent RNA helicase RhlB; Provisional
27-284 1.26e-28

ATP-dependent RNA helicase RhlB; Provisional


Pssm-ID: 235314 [Multi-domain]  Cd Length: 423  Bit Score: 115.07  E-value: 1.26e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  27 GEDVERFK-QQGGNIIVATPGRLEDMFRRKAEGLDlascvrSLDVLVLDEADRLLDMGFEASINTILEFLP--KQRRTGL 103
Cdd:PRK04837  122 GYDKQLKVlESGVDILIGTTGRLIDYAKQNHINLG------AIQVVVLDEADRMFDLGFIKDIRWLFRRMPpaNQRLNML 195
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321 104 FSATQTQEVENLVRAGLRNPVRVSVKEKgvaassaQKTPSRL--ENYYMvcKADEKFNQLVHFLRNHKQEKHLVFFST-- 179
Cdd:PRK04837  196 FSATLSYRVRELAFEHMNNPEYVEVEPE-------QKTGHRIkeELFYP--SNEEKMRLLQTLIEEEWPDRAIIFANTkh 266
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321 180 -CACVEYYGKAlevlvKGVKIMCIHGKM-KYKRNKIFMEFRKLQSGILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVH 257
Cdd:PRK04837  267 rCEEIWGHLAA-----DGHRVGLLTGDVaQKKRLRILEEFTRGDLDILVATDVAARGLHIPAVTHVFNYDLPDDCEDYVH 341
                         250       260       270
                  ....*....|....*....|....*....|....
gi 2462533321 258 RCGRTARIGHGGSALVFL-------LPMEESYIN 284
Cdd:PRK04837  342 RIGRTGRAGASGHSISLAceeyalnLPAIETYIG 375
DEADc_DDX27 cd17947
DEAD-box helicase domain of DEAD box protein 27; DDX27 (also called RHLP, deficiency of ...
12-127 6.50e-28

DEAD-box helicase domain of DEAD box protein 27; DDX27 (also called RHLP, deficiency of ribosomal subunits protein 1 homolog, and probable ATP-dependent RNA helicase DDX27) is involved in the processing of 5.8S and 28S ribosomal RNAs. More specifically, the encoded protein localizes to the nucleolus, where it interacts with the PeBoW complex to ensure proper 3' end formation of 47S rRNA. DDX27 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350705 [Multi-domain]  Cd Length: 196  Bit Score: 108.11  E-value: 6.50e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  12 FSCCSQILWIGGRNPGEDvERFKQQGGNIIVATPGRLEDMFRrKAEGLDLAScvrsLDVLVLDEADRLLDMGFEASINTI 91
Cdd:cd17947    87 FTDITFALAVGGLSLKAQ-EAALRARPDIVIATPGRLIDHLR-NSPSFDLDS----IEILVLDEADRMLEEGFADELKEI 160
                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 2462533321  92 LEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRVS 127
Cdd:cd17947   161 LRLCPRTRQTMLFSATMTDEVKDLAKLSLNKPVRVF 196
DEADc_DDX18 cd17942
DEAD-box helicase domain of DEAD box protein 18; This DDX18 gene encodes a DEAD box protein ...
21-127 1.16e-26

DEAD-box helicase domain of DEAD box protein 18; This DDX18 gene encodes a DEAD box protein and is activated by Myc protein. DDX18 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350700 [Multi-domain]  Cd Length: 198  Bit Score: 104.75  E-value: 1.16e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  21 IGGRNPGEDVERFKQqGGNIIVATPGRLEDMFRRKAEGLdlascVRSLDVLVLDEADRLLDMGFEASINTILEFLPKQRR 100
Cdd:cd17942    97 IGGANRKAEAEKLGK-GVNILVATPGRLLDHLQNTKGFL-----YKNLQCLIIDEADRILEIGFEEEMRQIIKLLPKRRQ 170
                          90       100
                  ....*....|....*....|....*...
gi 2462533321 101 TGLFSATQTQEVENLVRAGLRN-PVRVS 127
Cdd:cd17942   171 TMLFSATQTRKVEDLARISLKKkPLYVG 198
PLN00206 PLN00206
DEAD-box ATP-dependent RNA helicase; Provisional
19-275 1.51e-25

DEAD-box ATP-dependent RNA helicase; Provisional


Pssm-ID: 215103 [Multi-domain]  Cd Length: 518  Bit Score: 107.18  E-value: 1.51e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  19 LWIGGRNPGEDVERFkQQGGNIIVATPGRLEDMFRRKAEGLDLAScvrsldVLVLDEADRLLDMGFEASINTILEFLPkQ 98
Cdd:PLN00206  229 LVVGGDAMPQQLYRI-QQGVELIVGTPGRLIDLLSKHDIELDNVS------VLVLDEVDCMLERGFRDQVMQIFQALS-Q 300
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  99 RRTGLFSATQTQEVENLVRAGLRNPVRVSVKEKGVAASSAQKTPSRLEnyymvckADEKFNQLVHFL--RNHKQEKHLVF 176
Cdd:PLN00206  301 PQVLLFSATVSPEVEKFASSLAKDIILISIGNPNRPNKAVKQLAIWVE-------TKQKKQKLFDILksKQHFKPPAVVF 373
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321 177 FSTCACVEYYGKALEVlVKGVKIMCIHGK--MKyKRNKIFMEFRKLQSGILVCTDVMARGIDIPEVNWVLQYDPPSNASA 254
Cdd:PLN00206  374 VSSRLGADLLANAITV-VTGLKALSIHGEksMK-ERREVMKSFLVGEVPVIVATGVLGRGVDLLRVRQVIIFDMPNTIKE 451
                         250       260
                  ....*....|....*....|.
gi 2462533321 255 FVHRCGRTARIGHGGSALVFL 275
Cdd:PLN00206  452 YIHQIGRASRMGEKGTAIVFV 472
DEADc_DDX41 cd17951
DEAD-box helicase domain of DEAD box protein 41; DDX41 (also called ABS and MPLPF) interacts ...
19-126 1.19e-23

DEAD-box helicase domain of DEAD box protein 41; DDX41 (also called ABS and MPLPF) interacts with several spliceosomal proteins and may recognize the bacterial second messengers cyclic di-GMP and cyclic di-AMP, resulting in the induction of genes involved in the innate immune response. Diseases associated with DDX41 include "myeloproliferative/lymphoproliferative neoplasms, familial" and "Ddx41-related susceptibility to familial myeloproliferative/lymphoproliferative neoplasms". DDX41 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350709 [Multi-domain]  Cd Length: 206  Bit Score: 96.64  E-value: 1.19e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  19 LWIGGRNPGEDVERFKQqGGNIIVATPGRLEDMFRRKAEGLDLasCvrslDVLVLDEADRLLDMGFEASINTILEFLPKQ 98
Cdd:cd17951   105 LCIGGMSVKEQLEVIRK-GVHIVVATPGRLMDMLNKKKINLDI--C----RYLCLDEADRMIDMGFEEDIRTIFSYFKGQ 177
                          90       100
                  ....*....|....*....|....*...
gi 2462533321  99 RRTGLFSATQTQEVENLVRAGLRNPVRV 126
Cdd:cd17951   178 RQTLLFSATMPKKIQNFAKSALVKPVTV 205
HELICc smart00490
helicase superfamily c-terminal domain;
195-266 1.40e-23

helicase superfamily c-terminal domain;


Pssm-ID: 197757 [Multi-domain]  Cd Length: 82  Bit Score: 92.66  E-value: 1.40e-23
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2462533321  195 KGVKIMCIHGKMKYK-RNKIFMEFRKLQSGILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIG 266
Cdd:smart00490  10 LGIKVARLHGGLSQEeREEILDKFNNGKIKVLVATDVAERGLDLPGVDLVIIYDLPWSPASYIQRIGRAGRAG 82
DEADc_EIF4A cd17939
DEAD-box helicase domain of eukaryotic initiation factor 4A; The eukaryotic initiation ...
1-126 6.72e-23

DEAD-box helicase domain of eukaryotic initiation factor 4A; The eukaryotic initiation factor-4A (eIF4A) family consists of 3 proteins EIF4A1, EIF4A2, and EIF4A3. These factors are required for the binding of mRNA to 40S ribosomal subunits. In addition these proteins are helicases that function to unwind double-stranded RNA. EIF4A proteins are members of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350697 [Multi-domain]  Cd Length: 199  Bit Score: 94.70  E-value: 6.72e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321   1 MGCFveLNQRLFSCcsqilwIGGRNPGEDVERFkQQGGNIIVATPGRLEDMFRRKAegldlaSCVRSLDVLVLDEADRLL 80
Cdd:cd17939    88 LGDY--MGVKVHAC------IGGTSVREDRRKL-QYGPHIVVGTPGRVFDMLQRRS------LRTDKIKMFVLDEADEML 152
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 2462533321  81 DMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRV 126
Cdd:cd17939   153 SRGFKDQIYDIFQFLPPETQVVLFSATMPHEVLEVTKKFMRDPVRI 198
DEAD pfam00270
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ...
18-115 1.35e-22

DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression.


Pssm-ID: 425570 [Multi-domain]  Cd Length: 165  Bit Score: 92.69  E-value: 1.35e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  18 ILWIGGRNPGEDVERFKqqGGNIIVATPGRLEDMFRRKAEgldlascVRSLDVLVLDEADRLLDMGFEASINTILEFLPK 97
Cdd:pfam00270  77 ASLLGGDSRKEQLEKLK--GPDILVGTPGRLLDLLQERKL-------LKNLKLLVLDEAHRLLDMGFGPDLEEILRRLPK 147
                          90
                  ....*....|....*...
gi 2462533321  98 QRRTGLFSATQTQEVENL 115
Cdd:pfam00270 148 KRQILLLSATLPRNLEDL 165
DEXDc smart00487
DEAD-like helicases superfamily;
18-131 2.45e-22

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 92.94  E-value: 2.45e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321   18 ILWIGGRNPGEDVERFKQQGGNIIVATPGRLEDMFRRKAEGLdlascvRSLDVLVLDEADRLLDMGFEASINTILEFLPK 97
Cdd:smart00487  86 VGLYGGDSKREQLRKLESGKTDILVTTPGRLLDLLENDKLSL------SNVDLVILDEAHRLLDGGFGDQLEKLLKLLPK 159
                           90       100       110
                   ....*....|....*....|....*....|....
gi 2462533321   98 QRRTGLFSATQTQEVENLVRAGLRNPVRVSVKEK 131
Cdd:smart00487 160 NVQLLLLSATPPEEIENLLELFLNDPVFIDVGFT 193
DEADc_DDX23 cd17945
DEAD-box helicase domain of DEAD box protein 23; DDX23 (also called U5 snRNP 100kD protein and ...
21-127 1.23e-21

DEAD-box helicase domain of DEAD box protein 23; DDX23 (also called U5 snRNP 100kD protein and PRP28 homolog) is involved in pre-mRNA splicing and its phosphorylated form (by SRPK2) is required for spliceosomal B complex formation. Diseases associated with DDX23 include distal hereditary motor neuropathy, type II. DDX23 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350703 [Multi-domain]  Cd Length: 220  Bit Score: 91.61  E-value: 1.23e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  21 IGGRNPgEDVERFKQQGGNIIVATPGRLEDMFRRKAegLDLASCvrslDVLVLDEADRLLDMGFEASINTILEFLP---- 96
Cdd:cd17945   101 VGGHSI-EEQAFSLRNGCEILIATPGRLLDCLERRL--LVLNQC----TYVVLDEADRMIDMGFEPQVTKILDAMPvsnk 173
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*..
gi 2462533321  97 ----------------KQRRTGLFSATQTQEVENLVRAGLRNPVRVS 127
Cdd:cd17945   174 kpdteeaeklaasgkhRYRQTMMFTATMPPAVEKIAKGYLRRPVVVT 220
DEADc_DDX42 cd17952
DEAD-box helicase domain of DEAD box protein 42; DDX42 (also called Splicing Factor ...
35-127 5.87e-21

DEAD-box helicase domain of DEAD box protein 42; DDX42 (also called Splicing Factor 3B-Associated 125 kDa Protein, RHELP, or RNAHP) is an NTPase with a preference for ATP, the hydrolysis of which is enhanced by various RNA substrates. It acts as a non-processive RNA helicase with protein displacement and RNA annealing activities. DDX42 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350710 [Multi-domain]  Cd Length: 197  Bit Score: 89.40  E-value: 5.87e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  35 QQGGNIIVATPGRLEDMFRRKAEGLDLAScvrsldVLVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVEN 114
Cdd:cd17952   111 QEGAEIVVATPGRLIDMVKKKATNLQRVT------YLVLDEADRMFDMGFEYQVRSIVGHVRPDRQTLLFSATFKKKIEQ 184
                          90
                  ....*....|...
gi 2462533321 115 LVRAGLRNPVRVS 127
Cdd:cd17952   185 LARDILSDPIRVV 197
DEADc_DDX3_DDX4 cd17967
DEAD-box helicase domain of ATP-dependent RNA helicases DDX3 and DDX4; This subfamily includes ...
22-128 1.28e-20

DEAD-box helicase domain of ATP-dependent RNA helicases DDX3 and DDX4; This subfamily includes Drosophila melanogaster Vasa, which is essential for development. DEAD box protein 3 (DDX3) has been reported to display a high level of RNA-independent ATPase activity stimulated by both RNA and DNA. DEAD box protein 4 (DDX4, also known as VASA homolog) is an ATP-dependent RNA helicase required during spermatogenesis and is essential for the germline integrity. DDX3 and DDX4 are members of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350725 [Multi-domain]  Cd Length: 221  Bit Score: 88.70  E-value: 1.28e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  22 GGRNPGEDVERFkQQGGNIIVATPGRLEDMFRRKAEGLDlascvrSLDVLVLDEADRLLDMGFEASINTILEF--LPK-- 97
Cdd:cd17967   114 GGADVVHQQLQL-LRGCDILVATPGRLVDFIERGRISLS------SIKFLVLDEADRMLDMGFEPQIRKIVEHpdMPPkg 186
                          90       100       110
                  ....*....|....*....|....*....|.
gi 2462533321  98 QRRTGLFSATQTQEVENLVRAGLRNPVRVSV 128
Cdd:cd17967   187 ERQTLMFSATFPREIQRLAADFLKNYIFLTV 217
DEADc_DDX3 cd18051
DEAD-box helicase domain of DEAD box protein 3; DDX3 (also called helicase-like protein, DEAD ...
10-122 1.30e-20

DEAD-box helicase domain of DEAD box protein 3; DDX3 (also called helicase-like protein, DEAD box, X isoform, or DDX14) has been reported to display a high level of RNA-independent ATPase activity stimulated by both RNA and DNA. This protein has multiple conserved domains and is thought to play roles in both the nucleus and cytoplasm. Nuclear roles include transcriptional regulation, mRNP assembly, pre-mRNA splicing, and mRNA export. In the cytoplasm, this protein is thought to be involved in translation, cellular signaling, and viral replication. Misregulation of this gene has been implicated in tumorigenesis. Diseases associated with DDX3 include mental retardation, X-linked 102 and agenesis of the corpus callosum, with facial anomalies and robin sequence. DDX3 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350809 [Multi-domain]  Cd Length: 249  Bit Score: 89.71  E-value: 1.30e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  10 RLFSCCSQI---LWIGGRNPGE---DVERfkqqGGNIIVATPGRLEDMFRRKAEGLDlasCVRsldVLVLDEADRLLDMG 83
Cdd:cd18051   126 RKFAYRSRVrpcVVYGGADIGQqmrDLER----GCHLLVATPGRLVDMLERGKIGLD---YCK---YLVLDEADRMLDMG 195
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 2462533321  84 FEASINTILE--FLPK--QRRTGLFSATQTQEVENLVRAGLRN 122
Cdd:cd18051   196 FEPQIRRIVEqdTMPPtgERQTLMFSATFPKEIQMLARDFLDN 238
DEADc_DDX49 cd17955
DEAD-box helicase domain of DEAD box protein 49; DDX49 (also called Dbp8) is a member of the ...
40-124 4.35e-20

DEAD-box helicase domain of DEAD box protein 49; DDX49 (also called Dbp8) is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350713 [Multi-domain]  Cd Length: 204  Bit Score: 86.89  E-value: 4.35e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  40 IIVATPGRLEDMFRrkaEGLDLASCVRSLDVLVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAG 119
Cdd:cd17955   120 IVVATPGRLADHLR---SSDDTTKVLSRVKFLVLDEADRLLTGSFEDDLATILSALPPKRQTLLFSATLTDALKALKELF 196

                  ....*
gi 2462533321 120 LRNPV 124
Cdd:cd17955   197 GNKPF 201
DEADc_DDX31 cd17949
DEAD-box helicase domain of DEAD box protein 31; DDX31 (also called helicain or G2 helicase) ...
9-127 7.68e-20

DEAD-box helicase domain of DEAD box protein 31; DDX31 (also called helicain or G2 helicase) plays a role in ribosome biogenesis and TP53/p53 regulation through its interaction with NPM1. DDX31 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350707 [Multi-domain]  Cd Length: 214  Bit Score: 86.49  E-value: 7.68e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321   9 QRLFSCCSQI---LWIGGRNPGEDVERFKQqGGNIIVATPGRLEDMFRrKAEGLDLAScvrsLDVLVLDEADRLLDMGFE 85
Cdd:cd17949    86 EKLLKPFHWIvpgYLIGGEKRKSEKARLRK-GVNILIATPGRLLDHLK-NTQSFDVSN----LRWLVLDEADRLLDMGFE 159
                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 2462533321  86 ASINTILEFL-------------PKQRRTGLFSATQTQEVENLVRAGLRNPVRVS 127
Cdd:cd17949   160 KDITKILELLddkrskaggekskPSRRQTVLVSATLTDGVKRLAGLSLKDPVYID 214
DEADc_DDX4 cd18052
DEAD-box helicase domain of DEAD box protein 4; DEAD box protein 4 (DDX4, also known as VASA ...
35-121 2.26e-19

DEAD-box helicase domain of DEAD box protein 4; DEAD box protein 4 (DDX4, also known as VASA homolog) is an ATP-dependent RNA helicase required during spermatogenesis and is essential for the germline integrity. DEAD-box helicases are a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350810 [Multi-domain]  Cd Length: 264  Bit Score: 86.56  E-value: 2.26e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  35 QQGGNIIVATPGRLEDMFRRKAEGLDlascvrSLDVLVLDEADRLLDMGFEASINTILEFL---PKQRR-TGLFSATQTQ 110
Cdd:cd18052   168 EKGCHILVATPGRLLDFIGRGKISLS------KLKYLILDEADRMLDMGFGPEIRKLVSEPgmpSKEDRqTLMFSATFPE 241
                          90
                  ....*....|.
gi 2462533321 111 EVENLVRAGLR 121
Cdd:cd18052   242 EIQRLAAEFLK 252
DEADc_DDX5_DDX17 cd17966
DEAD-box helicase domain of ATP-dependent RNA helicases DDX5 and DDX17; DDX5 and DDX17 are ...
35-127 5.35e-19

DEAD-box helicase domain of ATP-dependent RNA helicases DDX5 and DDX17; DDX5 and DDX17 are members of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350724 [Multi-domain]  Cd Length: 197  Bit Score: 83.96  E-value: 5.35e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  35 QQGGNIIVATPGRLEDMFRRKAEGLdlascvRSLDVLVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVEN 114
Cdd:cd17966   111 RRGVEICIATPGRLIDFLDQGKTNL------RRVTYLVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRR 184
                          90
                  ....*....|...
gi 2462533321 115 LVRAGLRNPVRVS 127
Cdd:cd17966   185 LAEDFLKDYIQVN 197
DEADc_DDX54 cd17959
DEAD-box helicase domain of DEAD box protein 54; DDX54 interacts in a hormone-dependent manner ...
39-126 5.48e-19

DEAD-box helicase domain of DEAD box protein 54; DDX54 interacts in a hormone-dependent manner with nuclear receptors, and represses their transcriptional activity. DDX54 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350717 [Multi-domain]  Cd Length: 205  Bit Score: 83.89  E-value: 5.48e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  39 NIIVATPGRLedmFRRKAE-GLDLascvRSLDVLVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVR 117
Cdd:cd17959   123 DIIIATPGRL---LHLLVEmNLKL----SSVEYVVFDEADRLFEMGFAEQLHEILSRLPENRQTLLFSATLPKLLVEFAK 195

                  ....*....
gi 2462533321 118 AGLRNPVRV 126
Cdd:cd17959   196 AGLNEPVLI 204
DEADc_DDX46 cd17953
DEAD-box helicase domain of DEAD box protein 46; DDX46 (also called Prp5-like DEAD-box protein) ...
22-126 8.71e-18

DEAD-box helicase domain of DEAD box protein 46; DDX46 (also called Prp5-like DEAD-box protein) is a component of the 17S U2 snRNP complex. It plays an important role in pre-mRNA splicing and has a role in antiviral innate immunity. DDX46 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350711 [Multi-domain]  Cd Length: 222  Bit Score: 80.88  E-value: 8.71e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  22 GGRNPGEDVERFKQqGGNIIVATPGRLEDMFrrKAEGLDLAScVRSLDVLVLDEADRLLDMGFEASINTILEFLPKQRRT 101
Cdd:cd17953   121 GGSGISEQIAELKR-GAEIVVCTPGRMIDIL--TANNGRVTN-LRRVTYVVLDEADRMFDMGFEPQIMKIVNNIRPDRQT 196
                          90       100
                  ....*....|....*....|....*
gi 2462533321 102 GLFSATQTQEVENLVRAGLRNPVRV 126
Cdd:cd17953   197 VLFSATFPRKVEALARKVLHKPIEI 221
DEADc_EIF4AIII_DDX48 cd18045
DEAD-box helicase domain of eukaryotic initiation factor 4A-III; Eukaryotic initiation factor ...
21-126 8.81e-18

DEAD-box helicase domain of eukaryotic initiation factor 4A-III; Eukaryotic initiation factor 4A-III (EIF4AIII, also known as DDX48) is part of the exon junction complex (EJC) that plays a major role in posttranscriptional regulation of mRNA. EJC consists of four proteins (eIF4AIII, Barentsz [Btz], Mago, and Y14), mRNA, and ATP. DDX48 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350803 [Multi-domain]  Cd Length: 201  Bit Score: 80.59  E-value: 8.81e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  21 IGGRNPGEDVERFkQQGGNIIVATPGRLEDMFRRKAEGldlascVRSLDVLVLDEADRLLDMGFEASINTILEFLPKQRR 100
Cdd:cd18045   102 IGGTSVGDDIRKL-DYGQHIVSGTPGRVFDMIRRRSLR------TRHIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQ 174
                          90       100
                  ....*....|....*....|....*.
gi 2462533321 101 TGLFSATQTQEVENLVRAGLRNPVRV 126
Cdd:cd18045   175 VVLVSATLPQDILEMTNKFMTDPIRI 200
DEADc_DDX52 cd17957
DEAD-box helicase domain of DEAD box protein 52; DDX52 (also called ROK1 and HUSSY19) is ...
27-128 1.07e-17

DEAD-box helicase domain of DEAD box protein 52; DDX52 (also called ROK1 and HUSSY19) is ubiquitously expressed in testis, endometrium, and other tissues in humans. DDX52 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350715 [Multi-domain]  Cd Length: 198  Bit Score: 80.33  E-value: 1.07e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  27 GEDVERFKQQGGN---IIVATPGRLEDMFRRKAegLDLAScvrsLDVLVLDEADRLLDMGFEASINTILEFLP-KQRRTG 102
Cdd:cd17957    98 LEAKAKDGPKSITkydILVSTPLRLVFLLKQGP--IDLSS----VEYLVLDEADKLFEPGFREQTDEILAACTnPNLQRS 171
                          90       100
                  ....*....|....*....|....*.
gi 2462533321 103 LFSATQTQEVENLVRAGLRNPVRVSV 128
Cdd:cd17957   172 LFSATIPSEVEELARSVMKDPIRIIV 197
DEADc_DDX6 cd17940
DEAD-box helicase domain of DEAD box protein 6; DEAD box protein 6 (DDX6, also known as Rck or ...
22-126 3.02e-17

DEAD-box helicase domain of DEAD box protein 6; DEAD box protein 6 (DDX6, also known as Rck or p54) participates in mRNA regulation mediated by miRNA-mediated silencing. It also plays a role in global and transcript-specific messenger RNA (mRNA) storage, translational repression, and decay. It is a member of the DEAD-box helicase family, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350698 [Multi-domain]  Cd Length: 201  Bit Score: 78.88  E-value: 3.02e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  22 GGRNPGEDVERFKQqGGNIIVATPGRLEDMFRRKAegLDLASCVrsldVLVLDEADRLLDMGFEASINTILEFLPKQRRT 101
Cdd:cd17940   103 GGTSLRDDIMRLYQ-TVHVLVGTPGRILDLAKKGV--ADLSHCK----TLVLDEADKLLSQDFQPIIEKILNFLPKERQI 175
                          90       100
                  ....*....|....*....|....*
gi 2462533321 102 GLFSATQTQEVENLVRAGLRNPVRV 126
Cdd:cd17940   176 LLFSATFPLTVKNFMDRHMHNPYEI 200
DEADc_EIF4AII_EIF4AI_DDX2 cd18046
DEAD-box helicase domain of eukaryotic initiation factor 4A-I and 4-II; Eukaryotic initiation ...
21-126 3.85e-17

DEAD-box helicase domain of eukaryotic initiation factor 4A-I and 4-II; Eukaryotic initiation factor 4A-I (DDX2A) and eukaryotic initiation factor 4A-II (DDX2B) are involved in cap recognition and are required for mRNA binding to ribosome. They are DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350804 [Multi-domain]  Cd Length: 201  Bit Score: 78.64  E-value: 3.85e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  21 IGGRNPGEDVERFkQQGGNIIVATPGRLEDMFRRKAEGLDlascvrSLDVLVLDEADRLLDMGFEASINTILEFLPKQRR 100
Cdd:cd18046   102 IGGTSVRDDAQKL-QAGPHIVVGTPGRVFDMINRRYLRTD------YIKMFVLDEADEMLSRGFKDQIYDIFQKLPPDTQ 174
                          90       100
                  ....*....|....*....|....*.
gi 2462533321 101 TGLFSATQTQEVENLVRAGLRNPVRV 126
Cdd:cd18046   175 VVLLSATMPNDVLEVTTKFMRDPIRI 200
DEADc_DDX43_DDX53 cd17958
DEAD-box helicase domain of DEAD box proteins 43 and 53; DDX43 (also called cancer/testis ...
22-126 4.91e-17

DEAD-box helicase domain of DEAD box proteins 43 and 53; DDX43 (also called cancer/testis antigen 13 or helical antigen) displays tumor-specific expression. Diseases associated with DDX43 include rheumatoid lung disease. DDX53 is also called cancer/testis antigen 26 or DEAD-Box Protein CAGE. Both DDX46 and DDX53 are members of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350716 [Multi-domain]  Cd Length: 197  Bit Score: 78.27  E-value: 4.91e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  22 GGRNPGEDVERFKQqGGNIIVATPGRLEDMFRRKAEGLDlascvrSLDVLVLDEADRLLDMGFEASINTILEFLPKQRRT 101
Cdd:cd17958    99 GGGNRNEQIEDLSK-GVDIIIATPGRLNDLQMNNVINLK------SITYLVLDEADRMLDMGFEPQIRKILLDIRPDRQT 171
                          90       100
                  ....*....|....*....|....*
gi 2462533321 102 GLFSATQTQEVENLVRAGLRNPVRV 126
Cdd:cd17958   172 IMTSATWPDGVRRLAQSYLKDPMIV 196
DEADc_DDX59 cd17962
DEAD-box helicase domain of DEAD box protein 59; DDX59 plays an important role in lung cancer ...
35-127 4.12e-16

DEAD-box helicase domain of DEAD box protein 59; DDX59 plays an important role in lung cancer development by promoting DNA replication. DDX59 knockdown mice showed reduced cell proliferation, anchorage-independent cell growth, and reduction of tumor formation. Recent work shows that EGFR and Ras regulate DDX59 during lung cancer development. Diseases associated with DDX59 (also called zinc finger HIT domain-containing protein 5) include orofaciodigital syndrome V and orofaciodigital syndrome. DDX59 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350720 [Multi-domain]  Cd Length: 193  Bit Score: 75.66  E-value: 4.12e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  35 QQGGNIIVATPGRLEDMFRRKAEGLDlascvrSLDVLVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVEN 114
Cdd:cd17962   107 QQGVKVIIATPGRLLDILKQSSVELD------NIKIVVVDEADTMLKMGFQQQVLDILENISHDHQTILVSATIPRGIEQ 180
                          90
                  ....*....|...
gi 2462533321 115 LVRAGLRNPVRVS 127
Cdd:cd17962   181 LAGQLLQNPVRIT 193
DEADc_DDX24 cd17946
DEAD-box helicase domain of DEAD box protein 24; The human DDX24 gene encodes a DEAD box ...
31-169 1.18e-15

DEAD-box helicase domain of DEAD box protein 24; The human DDX24 gene encodes a DEAD box protein, which shows little similarity to any of the other known human DEAD box proteins, but shows a high similarity to mouse Ddx24 at the amino acid level. MDM2 mediates nonproteolytic polyubiquitylation of the DEAD-Box RNA helicase DDX24. DDX24 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP- binding region.


Pssm-ID: 350704 [Multi-domain]  Cd Length: 235  Bit Score: 75.35  E-value: 1.18e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  31 ERFKQQGGNIIVATPGRLEDMFrrkAEGLDLASCVRSLDVLVLDEADRLLDMGFEASINTILEFLP-------KQRRTGL 103
Cdd:cd17946   112 ERLLKKRPEIVVATPGRLWELI---QEGNEHLANLKSLRFLVLDEADRMLEKGHFAELEKILELLNkdragkkRKRQTFV 188
                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2462533321 104 FSATQTQEvenlvragLRNPVRVSVKEKgvaaSSAQKTPSRLENyymvckadekFNQLVHFLRNHK 169
Cdd:cd17946   189 FSATLTLD--------HQLPLKLNSKKK----KKKKEKKQKLEL----------LIEKVGFRKKPK 232
SSL2 COG1061
Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair];
34-323 1.62e-15

Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair];


Pssm-ID: 440681 [Multi-domain]  Cd Length: 566  Bit Score: 77.76  E-value: 1.62e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  34 KQQGGNIIVATPgrleDMFRRKAEgldLASCVRSLDVLVLDEADRLLDMGFEAsintILEFLPKQRRTGLfSAT------ 107
Cdd:COG1061   161 KDSDAPITVATY----QSLARRAH---LDELGDRFGLVIIDEAHHAGAPSYRR----ILEAFPAAYRLGL-TATpfrsdg 228
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321 108 QTQEVEN------------LVRAG-LRNPVRVSVKEKGVAASSAQKTPSRLENYYMVCKADEKFNQLVHFLRNHKQEKH- 173
Cdd:COG1061   229 REILLFLfdgivyeyslkeAIEDGyLAPPEYYGIRVDLTDERAEYDALSERLREALAADAERKDKILRELLREHPDDRKt 308
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321 174 LVFFSTCACVEYYGKALEVlvKGVKIMCIHGKMKYK-RNKIFMEFRKLQSGILVCTDVMARGIDIPEVNWVLQYDPPSNA 252
Cdd:COG1061   309 LVFCSSVDHAEALAELLNE--AGIRAAVVTGDTPKKeREEILEAFRDGELRILVTVDVLNEGVDVPRLDVAILLRPTGSP 386
                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2462533321 253 SAFVHRCGRTARIGHGGSALVFL------LPMEESYINFLAINQKCPLQEMKPQRNTADLLPKLKSMALADRAVFEK 323
Cdd:COG1061   387 REFIQRLGRGLRPAPGKEDALVYdfvgndVPVLEELAKDLRDLAGYRVEFLDEEESEELALLIAVKPALEVKGELEE 463
DEADc_DDX20 cd17943
DEAD-box helicase domain of DEAD box protein 20; DDX20 (also called DEAD Box Protein DP 103, ...
3-127 2.76e-15

DEAD-box helicase domain of DEAD box protein 20; DDX20 (also called DEAD Box Protein DP 103, Component Of Gems 3, Gemin-3, and SMN-Interacting Protein) interacts directly with SMN (survival of motor neurons), the spinal muscular atrophy gene product, and may play a catalytic role in the function of the SMN complex on ribonucleoproteins. Diseases associated with DDX20 include spinal muscular atrophy and muscular atrophy. DDX20 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350701 [Multi-domain]  Cd Length: 192  Bit Score: 73.45  E-value: 2.76e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321   3 CFVELNQRL--FSCCsqiLWIGGRNPGEDVERFKqqGGNIIVATPGRLEDMFRRKAegLDlascVRSLDVLVLDEADRLL 80
Cdd:cd17943    77 VFKKIGKKLegLKCE---VFIGGTPVKEDKKKLK--GCHIAVGTPGRIKQLIELGA--LN----VSHVRLFVLDEADKLM 145
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*..
gi 2462533321  81 DMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRVS 127
Cdd:cd17943   146 EGSFQKDVNWIFSSLPKNKQVIAFSATYPKNLDNLLARYMRKPVLVR 192
DEADc_DDX1 cd17938
DEAD-box helicase domain of DEAD box protein 1; DEAD box protein 1 (DDX1) acts as an ...
19-126 3.04e-14

DEAD-box helicase domain of DEAD box protein 1; DEAD box protein 1 (DDX1) acts as an ATP-dependent RNA helicase, able to unwind both RNA-RNA and RNA-DNA duplexes. It possesses 5' single-stranded RNA overhang nuclease activity as well as ATPase activity on various RNA, but not DNA polynucleotides. DDX1 may play a role in RNA clearance at DNA double-strand breaks (DSBs), thereby facilitating the template-guided repair of transcriptionally active regions of the genome. It may also be involved in 3'-end cleavage and polyadenylation of pre-mRNAs. DDX1 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350696 [Multi-domain]  Cd Length: 204  Bit Score: 70.81  E-value: 3.04e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  19 LWIGGRNPGEDVERFkQQGGNIIVATPGRLEDMFRRkaeGLDLASCVRsldVLVLDEADRLLDMGFEASINTILEFLPKQ 98
Cdd:cd17938    96 LLIGGVKAREQLKRL-ESGVDIVVGTPGRLEDLIKT---GKLDLSSVR---FFVLDEADRLLSQGNLETINRIYNRIPKI 168
                          90       100       110
                  ....*....|....*....|....*....|....*
gi 2462533321  99 RRTG------LFSAT-QTQEVENLVRAGLRNPVRV 126
Cdd:cd17938   169 TSDGkrlqviVCSATlHSFEVKKLADKIMHFPTWV 203
DEADc_DDX5 cd18049
DEAD-box helicase domain of DEAD box protein 5; DDX5 (also called RNA helicase P68, HLR1, ...
10-128 8.92e-14

DEAD-box helicase domain of DEAD box protein 5; DDX5 (also called RNA helicase P68, HLR1, G17P1, or HUMP68) is involved in pathways that include the alteration of RNA structures, plays a role as a coregulator of transcription, a regulator of splicing, and in the processing of small noncoding RNAs. It synergizes with DDX17 and SRA1 RNA to activate MYOD1 transcriptional activity and is involved in skeletal muscle differentiation. Dysregulation of this gene may play a role in cancer development. DDX5 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350807 [Multi-domain]  Cd Length: 234  Bit Score: 70.04  E-value: 8.92e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  10 RLFSCCSqilwIGGRNPGEDVeRFKQQGGNIIVATPGRLEDMFrrKAEGLDLASCVrsldVLVLDEADRLLDMGFEASIN 89
Cdd:cd18049   125 RLKSTCI----YGGAPKGPQI-RDLERGVEICIATPGRLIDFL--EAGKTNLRRCT----YLVLDEADRMLDMGFEPQIR 193
                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 2462533321  90 TILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRVSV 128
Cdd:cd18049   194 KIVDQIRPDRQTLMWSATWPKEVRQLAEDFLKDYIHINI 232
DEADc_DDX56 cd17961
DEAD-box helicase domain of DEAD box protein 56; DDX56 is a helicase required for assembly of ...
39-124 1.30e-13

DEAD-box helicase domain of DEAD box protein 56; DDX56 is a helicase required for assembly of infectious West Nile virus particles. New research suggests that DDX56 relocalizes to the site of virus assembly during WNV infection and that its interaction with WNV capsid in the cytoplasm may occur transiently during virion morphogenesis. DDX56 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350719 [Multi-domain]  Cd Length: 206  Bit Score: 68.76  E-value: 1.30e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  39 NIIVATPGRLEDMFRRKAEGLdlascVRSLDVLVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRA 118
Cdd:cd17961   122 DIVVSTPARLLSHLESGSLLL-----LSTLKYLVIDEADLVLSYGYEEDLKSLLSYLPKNYQTFLMSATLSEDVEALKKL 196

                  ....*.
gi 2462533321 119 GLRNPV 124
Cdd:cd17961   197 VLHNPA 202
DEADc_DDX17 cd18050
DEAD-box helicase domain of DEAD box protein 17; DDX17 (also called DEAD Box Protein P72 or ...
10-128 1.47e-13

DEAD-box helicase domain of DEAD box protein 17; DDX17 (also called DEAD Box Protein P72 or DEAD Box Protein P82) has a wide variety of functions including regulating the alternative splicing of exons exhibiting specific features such as the inclusion of AC-rich alternative exons in CD44 transcripts, playing a role in innate immunity, and promoting mRNA degradation mediated by the antiviral zinc-finger protein ZC3HAV1 in an ATPase-dependent manner. DDX17 synergizes with DDX5 and SRA1 RNA to activate MYOD1 transcriptional activity and is involved in skeletal muscle differentiation. DDX17 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350808 [Multi-domain]  Cd Length: 271  Bit Score: 70.04  E-value: 1.47e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  10 RLFSCCSqilwIGGRNPGEDVeRFKQQGGNIIVATPGRLEDMFRRKAEGLdlascvRSLDVLVLDEADRLLDMGFEASIN 89
Cdd:cd18050   163 RLKSTCI----YGGAPKGPQI-RDLERGVEICIATPGRLIDFLEAGKTNL------RRCTYLVLDEADRMLDMGFEPQIR 231
                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 2462533321  90 TILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRVSV 128
Cdd:cd18050   232 KIVDQIRPDRQTLMWSATWPKEVRQLAEDFLRDYVQINI 270
DEADc_DDX39 cd17950
DEAD-box helicase domain of DEAD box protein 39; DDX39A is involved in pre-mRNA splicing and ...
22-128 1.97e-13

DEAD-box helicase domain of DEAD box protein 39; DDX39A is involved in pre-mRNA splicing and is required for the export of mRNA out of the nucleus. DDX39B is an essential splicing factor required for association of U2 small nuclear ribonucleoprotein with pre-mRNA, and it also plays an important role in mRNA export from the nucleus to the cytoplasm. Diseases associated with DDX39A (also called UAP56-Related Helicase, 49 kDa) include gastrointestinal stromal tumor and inflammatory bowel disease 6, while diseases associated with DDX39B (also called 56 kDa U2AF65-Associated Protein) include Plasmodium vivax malaria. DDX39 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350708 [Multi-domain]  Cd Length: 208  Bit Score: 68.53  E-value: 1.97e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  22 GGRNPGEDVERFKQQGGNIIVATPGRLEDMFRRKAegLDLascvRSLDVLVLDEADRLL-DMGFEASINTILEFLPKQRR 100
Cdd:cd17950   107 GGVPIKKDIEVLKNKCPHIVVGTPGRILALVREKK--LKL----SHVKHFVLDECDKMLeQLDMRRDVQEIFRATPHDKQ 180
                          90       100
                  ....*....|....*....|....*...
gi 2462533321 101 TGLFSATQTQEVENLVRAGLRNPVRVSV 128
Cdd:cd17950   181 VMMFSATLSKEIRPVCKKFMQDPLEIFV 208
DUF4217 pfam13959
Domain of unknown function (DUF4217); This short domain is found at the C-terminus of many ...
308-349 5.94e-13

Domain of unknown function (DUF4217); This short domain is found at the C-terminus of many helicase proteins.


Pssm-ID: 464056 [Multi-domain]  Cd Length: 59  Bit Score: 62.80  E-value: 5.94e-13
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 2462533321 308 PKLKSMALADRAVFEKGMKAFVSYVQAYAKHECNLIFRLKAL 349
Cdd:pfam13959   2 LQLEKLVLKDRELKELAQKAFVSYVRAYSKHLAKSIFNVKKL 43
DEADc_DDX19_DDX25 cd17963
DEAD-box helicase domain of ATP-dependent RNA helicases DDX19 and DDX25; DDX19 (also called ...
26-117 6.91e-11

DEAD-box helicase domain of ATP-dependent RNA helicases DDX19 and DDX25; DDX19 (also called DEAD box RNA helicase DEAD5) and DDX25 (also called gonadotropin-regulated testicular RNA helicase (GRTH)) are members of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350721 [Multi-domain]  Cd Length: 196  Bit Score: 60.67  E-value: 6.91e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  26 PGEDVERFKQQGGNIIVATPGRLEDMFRRKAegLDLascvRSLDVLVLDEADRLLDM-GFEASINTILEFLPKQRRTGLF 104
Cdd:cd17963   100 PGNDVPRGKKITAQIVIGTPGTVLDWLKKRQ--LDL----KKIKILVLDEADVMLDTqGHGDQSIRIKRMLPRNCQILLF 173
                          90
                  ....*....|...
gi 2462533321 105 SATQTQEVENLVR 117
Cdd:cd17963   174 SATFPDSVRKFAE 186
DEADc_DDX51 cd17956
DEAD-box helicase domain of DEAD box protein 51; DDX51 aids cell cancer proliferation by ...
39-123 8.22e-10

DEAD-box helicase domain of DEAD box protein 51; DDX51 aids cell cancer proliferation by regulating multiple signalling pathways. Mammalian DEAD box protein Ddx51 acts in 3' end maturation of 28S rRNA by promoting the release of U8 snoRNA.It is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350714 [Multi-domain]  Cd Length: 231  Bit Score: 58.41  E-value: 8.22e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  39 NIIVATPGRLEDMFRRKaEGLDLascvRSLDVLVLDEADRLLDMGFE--------------------ASINTILEFLPKQ 98
Cdd:cd17956   128 DILVATPGRLVDHLNST-PGFTL----KHLRFLVIDEADRLLNQSFQdwletvmkalgrptapdlgsFGDANLLERSVRP 202
                          90       100
                  ....*....|....*....|....*
gi 2462533321  99 RRTGLFSATQTQEVENLVRAGLRNP 123
Cdd:cd17956   203 LQKLLFSATLTRDPEKLSSLKLHRP 227
SF2_C_FANCM_Hef cd18801
C-terminal helicase domain of Fanconi anemia group M family helicases; Fanconi anemia group M ...
153-264 2.83e-08

C-terminal helicase domain of Fanconi anemia group M family helicases; Fanconi anemia group M (FANCM) protein is a DNA-dependent ATPase component of the Fanconi anemia (FA) core complex. It is required for the normal activation of the FA pathway, leading to monoubiquitination of the FANCI-FANCD2 complex in response to DNA damage, cellular resistance to DNA cross-linking drugs, and prevention of chromosomal breakage. Hef (helicase-associated endonuclease fork-structure) belongs to the XPF/MUS81/FANCM family of endonucleases and is involved in stalled replication fork repair. FANCM and Hef are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350188 [Multi-domain]  Cd Length: 143  Bit Score: 51.97  E-value: 2.83e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321 153 KADEKFNQLVHFLRNH-------KQEKHLVFFSTCACVEYYGKALEVLVKGVKIMCIHGKMKYKRNK---------IFME 216
Cdd:cd18801     6 KIHPKLEKLEEIVKEHfkkkqegSDTRVIIFSEFRDSAEEIVNFLSKIRPGIRATRFIGQASGKSSKgmsqkeqkeVIEQ 85
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*...
gi 2462533321 217 FRKLQSGILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTAR 264
Cdd:cd18801    86 FRKGGYNVLVATSIGEEGLDIGEVDLIICYDASPSPIRMIQRMGRTGR 133
SF2_C_LHR cd18796
C-terminal helicase domain of LHR family helicases; Large helicase-related protein (LHR) is a ...
159-275 3.19e-08

C-terminal helicase domain of LHR family helicases; Large helicase-related protein (LHR) is a DNA damage-inducible helicase that uses ATP hydrolysis to drive unidirectional 3'-to-5' translocation along single-stranded DNA (ssDNA) and to unwind RNA:DNA duplexes. This group also includes related bacterial and archaeal helicases. LHR family helicases are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350183 [Multi-domain]  Cd Length: 150  Bit Score: 52.27  E-value: 3.19e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321 159 NQLVHFLRNHKqeKHLVFFSTCACVEYYGKAL----EVLVKGVKIMCIHGKM-KYKRNKIfmEfRKLQSG---ILVCTDV 230
Cdd:cd18796    29 AEVIFLLERHK--STLVFTNTRSQAERLAQRLrelcPDRVPPDFIALHHGSLsRELREEV--E-AALKRGdlkVVVATSS 103
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 2462533321 231 MARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSALVFL 275
Cdd:cd18796   104 LELGIDIGDVDLVIQIGSPKSVARLLQRLGRSGHRPGAASKGRLV 148
MPH1 COG1111
ERCC4-related helicase [Replication, recombination and repair];
224-268 5.94e-08

ERCC4-related helicase [Replication, recombination and repair];


Pssm-ID: 440728 [Multi-domain]  Cd Length: 718  Bit Score: 54.35  E-value: 5.94e-08
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 2462533321 224 ILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHG 268
Cdd:COG1111   414 VLVATSVAEEGLDIPEVDLVIFYEPVPSEIRSIQRKGRTGRKREG 458
SF2_C cd18785
C-terminal helicase domain of superfamily 2 DEAD/H-box helicases; Superfamily (SF)2 helicases ...
224-277 6.00e-08

C-terminal helicase domain of superfamily 2 DEAD/H-box helicases; Superfamily (SF)2 helicases include DEAD-box helicases, UvrB, RecG, Ski2, Sucrose Non-Fermenting (SNF) family helicases, and dicer proteins, among others. Similar to SF1 helicases, they do not form toroidal structures like SF3-6 helicases. SF2 helicases are a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Their helicase core is surrounded by C- and N-terminal domains with specific functions such as nucleases, RNA or DNA binding domains, or domains engaged in protein-protein interactions. The core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350172 [Multi-domain]  Cd Length: 77  Bit Score: 49.24  E-value: 6.00e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 2462533321 224 ILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARiGHGGSALVFLLP 277
Cdd:cd18785    25 ILVATNVLGEGIDVPSLDTVIFFDPPSSAASYIQRVGRAGR-GGKDEGEVILFV 77
ComFA COG4098
Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [Replication, ...
69-263 1.26e-07

Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [Replication, recombination and repair];


Pssm-ID: 443274 [Multi-domain]  Cd Length: 451  Bit Score: 52.95  E-value: 1.26e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  69 DVLVLDEADrlldmGFEASINTILEFLPKQ-RRTG----LFSATQTQEVENLVRAGLRN-------------PVRVSVKE 130
Cdd:COG4098   218 DLLIIDEVD-----AFPYSGDPMLQYAVKRaRKPDgkliYLTATPSKALQRQVKRGKLKvvklparyhghplPVPKFKWL 292
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321 131 KGVAASSAQKTPSRlenyymvckadekfnQLVHFLRNHKQEKH--LVFFSTCACVEYYGKALEVLVKGVKIMCIHGKMKY 208
Cdd:COG4098   293 GNWKKRLRRGKLPR---------------KLLKWLKKRLKEGRqlLIFVPTIELLEQLVALLQKLFPEERIAGVHAEDPE 357
                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321 209 KRNKIfMEFRKLQSGILVCTDVMARGIDIPEVN-WVLQYDPPS-NASAFVH---RCGRTA 263
Cdd:COG4098   358 RKEKV-QAFRDGEIPILVTTTILERGVTFPNVDvAVLGADHPVfTEAALVQiagRVGRSA 416
Cas3_I cd09639
CRISPR/Cas system-associated protein Cas3; CRISPR (Clustered Regularly Interspaced Short ...
155-266 2.41e-07

CRISPR/Cas system-associated protein Cas3; CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; DEAD/DEAH box helicase DNA helicase cas3'; Often but not always is fused to HD nuclease domain; signature gene for Type I


Pssm-ID: 187770 [Multi-domain]  Cd Length: 353  Bit Score: 52.05  E-value: 2.41e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321 155 DEKFNQLVHFLRNHKQE-KHLVFFSTC-ACVEYYGKALEvLVKGVKIMCIHGKMKY-----KRNKIFMEFRKLQSGILVC 227
Cdd:cd09639   202 VGEISSLERLLEFIKKGgSVAIIVNTVdRAQEFYQQLKE-KGPEEEIMLIHSRFTEkdrakKEAELLLEFKKSEKFVIVA 280
                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 2462533321 228 TDVMARGIDIpEVNWVlqYDPPSNASAFVHRCGRTARIG 266
Cdd:cd09639   281 TQVIEASLDI-SVDVM--ITELAPIDSLIQRLGRLHRYG 316
DEADc_DDX21_DDX50 cd17944
DEAD-box helicase domain of DEAD box proteins 21 and 50; DDX21 (also called Gu-Alpha and ...
22-121 2.46e-07

DEAD-box helicase domain of DEAD box proteins 21 and 50; DDX21 (also called Gu-Alpha and nucleolar RNA helicase 2) is an RNA helicase that acts as a sensor of the transcriptional status of both RNA polymerase (Pol) I and II. It promotes ribosomal RNA (rRNA) processing and transcription from polymerase II (Pol II) and binds various RNAs, such as rRNAs, snoRNAs, 7SK and, at lower extent, mRNAs. DDX50 (also called Gu-Beta, Nucleolar Protein Gu2, and malignant cell derived RNA helicase). DDX21 and DDX50 have similar genomic structures and are in tandem orientation on chromosome 10, suggesting that the two genes arose by gene duplication in evolution. Diseases associated with DDX21 include stomach disease and cerebral creatine deficiency syndrome 3. Diseases associated with DDX50 include rectal disease. Both are members of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. Their name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP- binding region.


Pssm-ID: 350702 [Multi-domain]  Cd Length: 202  Bit Score: 50.62  E-value: 2.46e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  22 GGRNPGEDVERFKQqGGNIIVATPGRLEDMFRRKAegLDLAScvrsLDVLVLDEADRLLDMGFEASINTILEFLPKQR-- 99
Cdd:cd17944    98 GGTPYQQQIFAIRN-GIDILVGTPGRIKDHLQNGR--LDLTK----LKHVVLDEVDQMLDMGFAEQVEEILSVSYKKDse 170
                          90       100
                  ....*....|....*....|....*
gi 2462533321 100 ---RTGLFSATQTQEVENLVRAGLR 121
Cdd:cd17944   171 dnpQTLLFSATCPDWVYNVAKKYMK 195
SF2_C_TRCF cd18810
C-terminal helicase domain of the transcription-repair coupling factor; Transcription-repair ...
183-241 8.52e-07

C-terminal helicase domain of the transcription-repair coupling factor; Transcription-repair coupling factor (TrcF) dissociates transcription elongation complexes blocked at nonpairing lesions and mediates recruitment of DNA repair proteins. TrcF is a DEAD-like helicase belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350197 [Multi-domain]  Cd Length: 151  Bit Score: 48.11  E-value: 8.52e-07
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321 183 VEYYGKALEVLVKGVKIMCIHGKM-KYKRNKIFMEFRKLQSGILVCTDVMARGIDIPEVN 241
Cdd:cd18810    38 IEKLATQLRQLVPEARIAIAHGQMtENELEEVMLEFAKGEYDILVCTTIIESGIDIPNAN 97
mfd TIGR00580
transcription-repair coupling factor (mfd); All proteins in this family for which functions ...
183-241 1.92e-06

transcription-repair coupling factor (mfd); All proteins in this family for which functions are known are DNA-dependent ATPases that function in the process of transcription-coupled DNA repair in which the repair of the transcribed strand of actively transcribed genes is repaired at a higher rate than the repair of non-transcribed regions of the genome and than the non-transcribed strand of the same gene. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). This family is closely related to the RecG and UvrB families. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273152 [Multi-domain]  Cd Length: 926  Bit Score: 49.66  E-value: 1.92e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321 183 VEYYGKALEVLVKGVKIMCIHGKM-KYKRNKIFMEFRKLQSGILVCTDVMARGIDIPEVN 241
Cdd:TIGR00580 673 IEKLATQLRELVPEARIAIAHGQMtENELEEVMLEFYKGEFQVLVCTTIIETGIDIPNAN 732
SF2_C_dicer cd18802
C-terminal helicase domain of the endoribonuclease Dicer; Dicer ribonucleases cleave ...
218-264 3.98e-06

C-terminal helicase domain of the endoribonuclease Dicer; Dicer ribonucleases cleave double-stranded RNA (dsRNA) precursors to generate microRNAs (miRNAs) and small interfering RNAs (siRNAs). In concert with Argonautes, these small RNAs bind complementary mRNAs to down-regulate their expression. miRNAs are processed by Dicer from small hairpins, while siRNAs are typically processed from longer dsRNA, from endogenous sources, or exogenous sources such as viral replication intermediates. Some organisms, such as Homo sapiens and Caenorhabditis elegans, encode one Dicer that generates miRNAs and siRNAs, but other organisms have multiple dicers with specialized functions. Dicer exists throughout eukaryotes, and a subset has an N-terminal helicase domain of the RIG-I-like receptor (RLR) subgroup. RLRs often function in innate immunity and Dicer helicase domains sometimes show differences in activity that correlate with roles in immunity. Dicer helicase domains are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350189 [Multi-domain]  Cd Length: 142  Bit Score: 46.05  E-value: 3.98e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 2462533321 218 RKLQSG---ILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRtAR 264
Cdd:cd18802    84 DKFRDGelnLLIATSVLEEGIDVPACNLVIRFDLPKTLRSYIQSRGR-AR 132
RecQ COG0514
Superfamily II DNA helicase RecQ [Replication, recombination and repair];
148-261 6.99e-06

Superfamily II DNA helicase RecQ [Replication, recombination and repair];


Pssm-ID: 440280 [Multi-domain]  Cd Length: 489  Bit Score: 47.83  E-value: 6.99e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321 148 YYMV--CKADEKFNQLVHFLRNHKQEKHLVFFSTCACVEYYGKALEVlvKGVKIMCIHGKMKYK-RNKIFMEFRKLQSGI 224
Cdd:COG0514   206 RLEVvpKPPDDKLAQLLDFLKEHPGGSGIVYCLSRKKVEELAEWLRE--AGIRAAAYHAGLDAEeREANQDRFLRDEVDV 283
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 2462533321 225 LVCTdV---MarGIDIPEVNWVLQYDPPSNASAF---VHRCGR 261
Cdd:COG0514   284 IVAT-IafgM--GIDKPDVRFVIHYDLPKSIEAYyqeIGRAGR 323
SF2_C_RecG_TRCF cd18792
C-terminal helicase domain of the RecG family helicases; The DEAD-like helicase RecG family ...
183-241 8.16e-06

C-terminal helicase domain of the RecG family helicases; The DEAD-like helicase RecG family contains recombination factor RecG and transcription-repair coupling factor TrcF. They are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350179 [Multi-domain]  Cd Length: 160  Bit Score: 45.34  E-value: 8.16e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321 183 VEYYGKALEVLVKGVKIMCIHGKMKY-KRNKIFMEFRKLQSGILVCTDVMARGIDIPEVN 241
Cdd:cd18792    47 IEALAEELKELVPEARVALLHGKMTEdEKEAVMLEFREGEYDILVSTTVIEVGIDVPNAN 106
SF2-N cd00046
N-terminal DEAD/H-box helicase domain of superfamily 2 helicases; The DEAD/H-like superfamily ...
22-107 1.52e-05

N-terminal DEAD/H-box helicase domain of superfamily 2 helicases; The DEAD/H-like superfamily 2 helicases comprise a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This N-terminal domain contains the ATP-binding region.


Pssm-ID: 350668 [Multi-domain]  Cd Length: 146  Bit Score: 44.32  E-value: 1.52e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  22 GGRNPGEDVERFKQQGgNIIVATPGRLEDMFRRkaeglDLASCVRSLDVLVLDEADRLLDMGFEASIN--TILEFLPKQR 99
Cdd:cd00046    65 GGSSAEEREKNKLGDA-DIIIATPDMLLNLLLR-----EDRLFLKDLKLIIVDEAHALLIDSRGALILdlAVRKAGLKNA 138

                  ....*...
gi 2462533321 100 RTGLFSAT 107
Cdd:cd00046   139 QVILLSAT 146
PRK13766 PRK13766
Hef nuclease; Provisional
216-273 2.75e-05

Hef nuclease; Provisional


Pssm-ID: 237496 [Multi-domain]  Cd Length: 773  Bit Score: 46.02  E-value: 2.75e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 2462533321 216 EFRKLQSGILVCTDVMARGIDIPEVNWVLQYDP-PSnASAFVHRCGRTARiGHGGSALV 273
Cdd:PRK13766  418 KFRAGEFNVLVSTSVAEEGLDIPSVDLVIFYEPvPS-EIRSIQRKGRTGR-QEEGRVVV 474
SF2_C_XPB cd18789
C-terminal helicase domain of XPB-like helicases; TFIIH basal transcription factor complex ...
157-276 4.09e-05

C-terminal helicase domain of XPB-like helicases; TFIIH basal transcription factor complex helicase XPB (xeroderma pigmentosum type B) subunit (also known as DNA excision repair protein ERCC-3 or TFIIH 89 kDa subunit) is the ATP-dependent 3'-5' DNA helicase component of the core-TFIIH basal transcription factor, involved in nucleotide excision repair (NER) of DNA and, when complexed to CAK, in RNA transcription by RNA polymerase II. XPB is a DEAD-like helicase belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350176 [Multi-domain]  Cd Length: 153  Bit Score: 43.39  E-value: 4.09e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321 157 KFNQLVHFLRNHKQ-EKHLVFFSTCACVEYYGKALEVLVkgvkimcIHGKM-KYKRNKIFMEFRKLQSGILVCTDVMARG 234
Cdd:cd18789    35 KLRALEELLKRHEQgDKIIVFTDNVEALYRYAKRLLKPF-------ITGETpQSEREEILQNFREGEYNTLVVSKVGDEG 107
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 2462533321 235 IDIPEVNWVLQYDpPSNASA--FVHRCGRTARIGHGGSALVFLL 276
Cdd:cd18789   108 IDLPEANVAIQIS-GHGGSRrqEAQRLGRILRPKKGGGKNAFFY 150
SF2_C_RecG cd18811
C-terminal helicase domain of DNA helicase RecG; ATP-dependent DNA helicase RecG plays a ...
181-276 7.68e-05

C-terminal helicase domain of DNA helicase RecG; ATP-dependent DNA helicase RecG plays a critical role in recombination and DNA repair. RecG helps process Holliday junction intermediates to mature products by catalyzing branch migration. It is a DEAD-like helicase belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350198 [Multi-domain]  Cd Length: 159  Bit Score: 42.72  E-value: 7.68e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321 181 ACVEYYGKALEVLVKGVKIMCIHGKMKYK-RNKIFMEFRKLQSGILVCTDVMARGIDIPEVNWVLQYDPpsnasafvHRC 259
Cdd:cd18811    46 AAVAMYEYLKERFRPELNVGLLHGRLKSDeKDAVMAEFREGEVDILVSTTVIEVGVDVPNATVMVIEDA--------ERF 117
                          90       100
                  ....*....|....*....|...
gi 2462533321 260 GRTA------RIGHGGSALVFLL 276
Cdd:cd18811   118 GLSQlhqlrgRVGRGDHQSYCLL 140
SF2_C_SNF cd18793
C-terminal helicase domain of the SNF family helicases; The Sucrose Non-Fermenting (SNF) ...
157-266 1.83e-04

C-terminal helicase domain of the SNF family helicases; The Sucrose Non-Fermenting (SNF) family includes chromatin-remodeling factors, such as CHD proteins and SMARCA proteins, recombination proteins Rad54, and many others. They are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350180 [Multi-domain]  Cd Length: 135  Bit Score: 40.92  E-value: 1.83e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321 157 KFNQLVHFLRNHKQEKH-LVFFStcacveYYGKALEVL-----VKGVKIMCIHGKMK-YKRNKIFMEFRKLQSG--ILVC 227
Cdd:cd18793    12 KLEALLELLEELREPGEkVLIFS------QFTDTLDILeealrERGIKYLRLDGSTSsKERQKLVDRFNEDPDIrvFLLS 85
                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 2462533321 228 TDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIG 266
Cdd:cd18793    86 TKAGGVGLNLTAANRVILYDPWWNPAVEEQAIDRAHRIG 124
DEADc_MRH4 cd17965
DEAD-box helicase domain of ATP-dependent RNA helicase MRH4; Mitochondrial RNA helicase 4 ...
40-117 3.12e-04

DEAD-box helicase domain of ATP-dependent RNA helicase MRH4; Mitochondrial RNA helicase 4 (MRH4) plays an essential role during the late stages of mitochondrial ribosome or mitoribosome assembly by promoting remodeling of the 21S rRNA-protein interactions. MRH4 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350723 [Multi-domain]  Cd Length: 251  Bit Score: 41.98  E-value: 3.12e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2462533321  40 IIVATPGRLEDMFrrKAEGLDLASCvrslDVLVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVR 117
Cdd:cd17965   164 ILVTTPGKLASLA--KSRPKILSRV----THLVVDEADTLFDRSFLQDTTSIIKRAPKLKHLILCSATIPKEFDKTLR 235
DEADc_DDX28 cd17948
DEAD-box helicase domain of DEAD box protein 28; DDX28 (also called mitochondrial DEAD-box ...
22-127 7.12e-04

DEAD-box helicase domain of DEAD box protein 28; DDX28 (also called mitochondrial DEAD-box polypeptide 28) plays an essential role in facilitating the proper assembly of the mitochondrial large ribosomal subunit and its helicase activity is essential for this function. DDX28 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350706 [Multi-domain]  Cd Length: 231  Bit Score: 40.43  E-value: 7.12e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321  22 GGRNPGeDVERFKQQGGNIIVATPGRLEDMFRRKAEGLDLASCvrsldvLVLDEADRLLDMGFEASINTILE-----FLP 96
Cdd:cd17948   101 GGRTKR-QIRNPHFEEVDILVATPGALSKLLTSRIYSLEQLRH------LVLDEADTLLDDSFNEKLSHFLRrfplaSRR 173
                          90       100       110
                  ....*....|....*....|....*....|.
gi 2462533321  97 KQRRTGLFSATQtqevenLVRAGLRNPVRVS 127
Cdd:cd17948   174 SENTDGLDPGTQ------LVLVSATMPSGVG 198
PRK11057 PRK11057
ATP-dependent DNA helicase RecQ; Provisional
156-277 7.99e-03

ATP-dependent DNA helicase RecQ; Provisional


Pssm-ID: 182933 [Multi-domain]  Cd Length: 607  Bit Score: 38.16  E-value: 7.99e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321 156 EKF---NQLVHFLRNHKQEKHLVFFSTCACVEYYGKALEVlvKGVKIMCIHGKMKY-KRNKIFMEFRKLQSGILVCTDVM 231
Cdd:PRK11057  219 EKFkplDQLMRYVQEQRGKSGIIYCNSRAKVEDTAARLQS--RGISAAAYHAGLDNdVRADVQEAFQRDDLQIVVATVAF 296
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 2462533321 232 ARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSALVFLLP 277
Cdd:PRK11057  297 GMGINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAMLFYDP 342
HepA COG0553
Superfamily II DNA or RNA helicase, SNF2 family [Transcription, Replication, recombination, ...
155-266 8.96e-03

Superfamily II DNA or RNA helicase, SNF2 family [Transcription, Replication, recombination, and repair];


Pssm-ID: 440319 [Multi-domain]  Cd Length: 682  Bit Score: 37.90  E-value: 8.96e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462533321 155 DEKFNQLVHFLRNHKQEKH--LVF--F-STCACVEyygKALEVlvKGVKIMCIHGKMKYK-RNKIFMEFRKLQSG--ILV 226
Cdd:COG0553   532 SAKLEALLELLEELLAEGEkvLVFsqFtDTLDLLE---ERLEE--RGIEYAYLHGGTSAEeRDELVDRFQEGPEApvFLI 606
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 2462533321 227 CTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIG 266
Cdd:COG0553   607 SLKAGGEGLNLTAADHVIHYDLWWNPAVEEQAIDRAHRIG 646
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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