NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|929773718|ref|XP_014161792|]
View 

hypothetical protein, variant [Sphaeroforma arctica JP610]

Protein Classification

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

Name Accession Description Interval E-value
LSm14_N cd01736
Like-Sm protein 14, N-terminal domain; LSm14 (also known as RAP55) belongs to a family of ...
5-79 1.53e-34

Like-Sm protein 14, N-terminal domain; LSm14 (also known as RAP55) belongs to a family of Sm-like proteins that associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold, containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet, that associates with other Sm proteins to form hexameric and heptameric ring structures. In addition to the N-terminal Sm-like domain, LSm14 has an uncharacterized C-terminal domain containing a conserved DFDF box. In Xenopus laevis, LSm14 is an oocyte-specific constituent of ribonucleoprotein particles.


:

Pssm-ID: 212483  Cd Length: 74  Bit Score: 125.78  E-value: 1.53e-34
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 929773718   5 VAPYLGSKISLVSKSNIRYEGVLYTIDPEKAAVALSTVVSFGTEGRRGGVdEVPPSNEVYSYITFRGADIKDLHV 79
Cdd:cd01736    1 GTPYIGSKISLISKSDIRYEGILYTIDTEDSTIALKNVRSFGTEGRPTGR-PIPPSDEVYDYIVFRGSDIKDLTV 74
FDF super family cl09757
FDF domain; The FDF domain, so called because of the conserved FDF at its N termini, is an ...
564-653 5.81e-06

FDF domain; The FDF domain, so called because of the conserved FDF at its N termini, is an entirely alpha-helical domain with multiple exposed hydrophilic loops. It is found at the C terminus of Scd6p-like SM domains. It is also found with other divergent Sm domains and in proteins such as Dcp3p and FLJ21128, where it is found N terminal to the YjeF-N domain, a novel Rossmann fold domain.


The actual alignment was detected with superfamily member pfam09532:

Pssm-ID: 430668  Cd Length: 104  Bit Score: 45.52  E-value: 5.81e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 929773718  564 EFDMQTANEKFD---------KEEIEKEFEEMHIGDGAPTAHTNDEDMDDEGIYDKKKSFFDNLSSDIVDR--QKEQESG 632
Cdd:pfam09532   6 DFDFESNNAKFNkqevfaelrKNDKLDEEKRLVNENNATRVATNEQPNEEVKGVYKKDDFFDNISSEANDRgiQSGPSPS 85
                          90       100
                  ....*....|....*....|.
gi 929773718  633 ERAHRmsrgEERRMNVDTFGN 653
Cdd:pfam09532  86 GRDWR----EERSLNTETFGV 102
PHA03255 super family cl31530
BDLF3; Provisional
430-564 2.69e-05

BDLF3; Provisional


The actual alignment was detected with superfamily member PHA03255:

Pssm-ID: 165513 [Multi-domain]  Cd Length: 234  Bit Score: 46.44  E-value: 2.69e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 929773718 430 SAKGRESGTAFSGTISKDKGEANTQTSTQNTpqAKAPTQTPAPAPAQPQTGKAGGSLLPTPGTGGNNTQINggpqKHTQA 509
Cdd:PHA03255  33 SAGNVTGTTAVTTPSPSASGPSTNQSTTLTT--TSAPITTTAILSTNTTTVTSTGTTVTPVPTTSNASTIN----VTTKV 106
                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 929773718 510 QVQAANATAHNNKSTRGGTQGSGERRRYSRGGARQVANANTGAPVPTQKPTDMPE 564
Cdd:PHA03255 107 TAQNITATEAGTGTSTGVTSNVTTRSSSTTSATTRITNATTLAPTLSSKGTSNAT 161
PTZ00121 super family cl31754
MAEBL; Provisional
317-435 5.57e-03

MAEBL; Provisional


The actual alignment was detected with superfamily member PTZ00121:

Pssm-ID: 173412 [Multi-domain]  Cd Length: 2084  Bit Score: 40.51  E-value: 5.57e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 929773718  317 EASKEGAIDGEKSDEVKKETAGESGGSTGASKDEGGKKAD----KSSVPSKAEESGKKVANK---DGGKKNVEDVRKdSA 389
Cdd:PTZ00121 1395 EAKKKAEEDKKKADELKKAAAAKKKADEAKKKAEEKKKADeakkKAEEAKKADEAKKKAEEAkkaEEAKKKAEEAKK-AD 1473
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 929773718  390 QVEKPKKPATLAERVAANKKDGDSKKKDEPEKPNAKANLESAKGRE 435
Cdd:PTZ00121 1474 EAKKKAEEAKKADEAKKKAEEAKKKADEAKKAAEAKKKADEAKKAE 1519
 
Name Accession Description Interval E-value
LSm14_N cd01736
Like-Sm protein 14, N-terminal domain; LSm14 (also known as RAP55) belongs to a family of ...
5-79 1.53e-34

Like-Sm protein 14, N-terminal domain; LSm14 (also known as RAP55) belongs to a family of Sm-like proteins that associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold, containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet, that associates with other Sm proteins to form hexameric and heptameric ring structures. In addition to the N-terminal Sm-like domain, LSm14 has an uncharacterized C-terminal domain containing a conserved DFDF box. In Xenopus laevis, LSm14 is an oocyte-specific constituent of ribonucleoprotein particles.


Pssm-ID: 212483  Cd Length: 74  Bit Score: 125.78  E-value: 1.53e-34
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 929773718   5 VAPYLGSKISLVSKSNIRYEGVLYTIDPEKAAVALSTVVSFGTEGRRGGVdEVPPSNEVYSYITFRGADIKDLHV 79
Cdd:cd01736    1 GTPYIGSKISLISKSDIRYEGILYTIDTEDSTIALKNVRSFGTEGRPTGR-PIPPSDEVYDYIVFRGSDIKDLTV 74
LSM14 pfam12701
Scd6-like Sm domain; The Scd6-like Sm domain is found in Scd6p from S. cerevisiae, Rap55 from ...
7-82 6.51e-34

Scd6-like Sm domain; The Scd6-like Sm domain is found in Scd6p from S. cerevisiae, Rap55 from the newt Pleurodeles walt, and its orthologs from fungi, animals, plants and apicomplexans. The domain is also found in Dcp3p and the human EDC3/FLJ21128 protein where it is fused to the the Rossmanoid YjeF-N domain. In addition both EDC3 and Scd6p are found fused to the FDF domain.


Pssm-ID: 463675  Cd Length: 75  Bit Score: 124.15  E-value: 6.51e-34
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 929773718    7 PYLGSKISLVSKSNIRYEGVLYTIDPEKAAVALSTVVSFGTEGRRGGvDEVPPSNEVYSYITFRGADIKDLHVVDT 82
Cdd:pfam12701   1 PFIGSRISLISKSDIRYEGILHSIDTEDSTITLKNVRSFGTEGRGPG-PQEPPSDEVYEYIVFRGSDIKDLKILEP 75
FDF pfam09532
FDF domain; The FDF domain, so called because of the conserved FDF at its N termini, is an ...
564-653 5.81e-06

FDF domain; The FDF domain, so called because of the conserved FDF at its N termini, is an entirely alpha-helical domain with multiple exposed hydrophilic loops. It is found at the C terminus of Scd6p-like SM domains. It is also found with other divergent Sm domains and in proteins such as Dcp3p and FLJ21128, where it is found N terminal to the YjeF-N domain, a novel Rossmann fold domain.


Pssm-ID: 430668  Cd Length: 104  Bit Score: 45.52  E-value: 5.81e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 929773718  564 EFDMQTANEKFD---------KEEIEKEFEEMHIGDGAPTAHTNDEDMDDEGIYDKKKSFFDNLSSDIVDR--QKEQESG 632
Cdd:pfam09532   6 DFDFESNNAKFNkqevfaelrKNDKLDEEKRLVNENNATRVATNEQPNEEVKGVYKKDDFFDNISSEANDRgiQSGPSPS 85
                          90       100
                  ....*....|....*....|.
gi 929773718  633 ERAHRmsrgEERRMNVDTFGN 653
Cdd:pfam09532  86 GRDWR----EERSLNTETFGV 102
PHA03255 PHA03255
BDLF3; Provisional
430-564 2.69e-05

BDLF3; Provisional


Pssm-ID: 165513 [Multi-domain]  Cd Length: 234  Bit Score: 46.44  E-value: 2.69e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 929773718 430 SAKGRESGTAFSGTISKDKGEANTQTSTQNTpqAKAPTQTPAPAPAQPQTGKAGGSLLPTPGTGGNNTQINggpqKHTQA 509
Cdd:PHA03255  33 SAGNVTGTTAVTTPSPSASGPSTNQSTTLTT--TSAPITTTAILSTNTTTVTSTGTTVTPVPTTSNASTIN----VTTKV 106
                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 929773718 510 QVQAANATAHNNKSTRGGTQGSGERRRYSRGGARQVANANTGAPVPTQKPTDMPE 564
Cdd:PHA03255 107 TAQNITATEAGTGTSTGVTSNVTTRSSSTTSATTRITNATTLAPTLSSKGTSNAT 161
PTZ00121 PTZ00121
MAEBL; Provisional
317-435 5.57e-03

MAEBL; Provisional


Pssm-ID: 173412 [Multi-domain]  Cd Length: 2084  Bit Score: 40.51  E-value: 5.57e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 929773718  317 EASKEGAIDGEKSDEVKKETAGESGGSTGASKDEGGKKAD----KSSVPSKAEESGKKVANK---DGGKKNVEDVRKdSA 389
Cdd:PTZ00121 1395 EAKKKAEEDKKKADELKKAAAAKKKADEAKKKAEEKKKADeakkKAEEAKKADEAKKKAEEAkkaEEAKKKAEEAKK-AD 1473
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 929773718  390 QVEKPKKPATLAERVAANKKDGDSKKKDEPEKPNAKANLESAKGRE 435
Cdd:PTZ00121 1474 EAKKKAEEAKKADEAKKKAEEAKKKADEAKKAAEAKKKADEAKKAE 1519
Pneumo_att_G pfam05539
Pneumovirinae attachment membrane glycoprotein G;
453-569 6.61e-03

Pneumovirinae attachment membrane glycoprotein G;


Pssm-ID: 114270 [Multi-domain]  Cd Length: 408  Bit Score: 39.65  E-value: 6.61e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 929773718  453 TQTSTQNTPQAKAPTQTPAPAPAQPQTGKAGGSLLPTPGTGGNNTQINGGPQ-------KHTQAQVQAANATAHNNKSTR 525
Cdd:pfam05539 182 TEVSHPTYPSQVTPQSQPATQGHQTATANQRLSSTEPVGTQGTTTSSNPEPQtepppsqRGPSGSPQHPPSTTSQDQSTT 261
                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|
gi 929773718  526 GGTQGSGERRRY--SRGGARQVANANTGAPVP----TQKPTDMPEFDMQT 569
Cdd:pfam05539 262 GDGQEHTQRRKTppATSNRRSPHSTATPPPTTkrqeTGRPTPRPTATTQS 311
 
Name Accession Description Interval E-value
LSm14_N cd01736
Like-Sm protein 14, N-terminal domain; LSm14 (also known as RAP55) belongs to a family of ...
5-79 1.53e-34

Like-Sm protein 14, N-terminal domain; LSm14 (also known as RAP55) belongs to a family of Sm-like proteins that associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold, containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet, that associates with other Sm proteins to form hexameric and heptameric ring structures. In addition to the N-terminal Sm-like domain, LSm14 has an uncharacterized C-terminal domain containing a conserved DFDF box. In Xenopus laevis, LSm14 is an oocyte-specific constituent of ribonucleoprotein particles.


Pssm-ID: 212483  Cd Length: 74  Bit Score: 125.78  E-value: 1.53e-34
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 929773718   5 VAPYLGSKISLVSKSNIRYEGVLYTIDPEKAAVALSTVVSFGTEGRRGGVdEVPPSNEVYSYITFRGADIKDLHV 79
Cdd:cd01736    1 GTPYIGSKISLISKSDIRYEGILYTIDTEDSTIALKNVRSFGTEGRPTGR-PIPPSDEVYDYIVFRGSDIKDLTV 74
LSM14 pfam12701
Scd6-like Sm domain; The Scd6-like Sm domain is found in Scd6p from S. cerevisiae, Rap55 from ...
7-82 6.51e-34

Scd6-like Sm domain; The Scd6-like Sm domain is found in Scd6p from S. cerevisiae, Rap55 from the newt Pleurodeles walt, and its orthologs from fungi, animals, plants and apicomplexans. The domain is also found in Dcp3p and the human EDC3/FLJ21128 protein where it is fused to the the Rossmanoid YjeF-N domain. In addition both EDC3 and Scd6p are found fused to the FDF domain.


Pssm-ID: 463675  Cd Length: 75  Bit Score: 124.15  E-value: 6.51e-34
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 929773718    7 PYLGSKISLVSKSNIRYEGVLYTIDPEKAAVALSTVVSFGTEGRRGGvDEVPPSNEVYSYITFRGADIKDLHVVDT 82
Cdd:pfam12701   1 PFIGSRISLISKSDIRYEGILHSIDTEDSTITLKNVRSFGTEGRGPG-PQEPPSDEVYEYIVFRGSDIKDLKILEP 75
SM-ATX pfam14438
Ataxin 2 SM domain; This SM domain is found in Ataxin-2.
10-79 1.88e-06

Ataxin 2 SM domain; This SM domain is found in Ataxin-2.


Pssm-ID: 464173  Cd Length: 78  Bit Score: 46.01  E-value: 1.88e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 929773718   10 GSKISLVSKSNIRYEGVLYTIDPEK-AAVALSTVVSFGTEGRRGGvdeVPPSNEVYSYITFRGADIKDLHV 79
Cdd:pfam14438  10 GLVVEVTTKNGEVYEGIFSTASLEKdFGVVLKMARRIKKSNGSGL---NPVRGEIVDTMIFPAKDIVDIEA 77
FDF pfam09532
FDF domain; The FDF domain, so called because of the conserved FDF at its N termini, is an ...
564-653 5.81e-06

FDF domain; The FDF domain, so called because of the conserved FDF at its N termini, is an entirely alpha-helical domain with multiple exposed hydrophilic loops. It is found at the C terminus of Scd6p-like SM domains. It is also found with other divergent Sm domains and in proteins such as Dcp3p and FLJ21128, where it is found N terminal to the YjeF-N domain, a novel Rossmann fold domain.


Pssm-ID: 430668  Cd Length: 104  Bit Score: 45.52  E-value: 5.81e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 929773718  564 EFDMQTANEKFD---------KEEIEKEFEEMHIGDGAPTAHTNDEDMDDEGIYDKKKSFFDNLSSDIVDR--QKEQESG 632
Cdd:pfam09532   6 DFDFESNNAKFNkqevfaelrKNDKLDEEKRLVNENNATRVATNEQPNEEVKGVYKKDDFFDNISSEANDRgiQSGPSPS 85
                          90       100
                  ....*....|....*....|.
gi 929773718  633 ERAHRmsrgEERRMNVDTFGN 653
Cdd:pfam09532  86 GRDWR----EERSLNTETFGV 102
PHA03255 PHA03255
BDLF3; Provisional
430-564 2.69e-05

BDLF3; Provisional


Pssm-ID: 165513 [Multi-domain]  Cd Length: 234  Bit Score: 46.44  E-value: 2.69e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 929773718 430 SAKGRESGTAFSGTISKDKGEANTQTSTQNTpqAKAPTQTPAPAPAQPQTGKAGGSLLPTPGTGGNNTQINggpqKHTQA 509
Cdd:PHA03255  33 SAGNVTGTTAVTTPSPSASGPSTNQSTTLTT--TSAPITTTAILSTNTTTVTSTGTTVTPVPTTSNASTIN----VTTKV 106
                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 929773718 510 QVQAANATAHNNKSTRGGTQGSGERRRYSRGGARQVANANTGAPVPTQKPTDMPE 564
Cdd:PHA03255 107 TAQNITATEAGTGTSTGVTSNVTTRSSSTTSATTRITNATTLAPTLSSKGTSNAT 161
PRK13914 PRK13914
invasion associated endopeptidase;
420-528 3.12e-03

invasion associated endopeptidase;


Pssm-ID: 237555 [Multi-domain]  Cd Length: 481  Bit Score: 40.94  E-value: 3.12e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 929773718 420 EKPNAKANLESAKGRESGTAFSGTISKDkgeanTQTSTQNTPQAKAPTQTPAPAPAqPQTGKAGGSLLPTPGTGGNNTQi 499
Cdd:PRK13914 259 EAPAAEKQAAPVVKENTNTNTATTEKKE-----TTTQQQTAPKAPTEAAKPAPAPS-TNTNANKTNTNTNTNTNNTNTS- 331
                         90       100
                 ....*....|....*....|....*....
gi 929773718 500 ngGPQKHTQAQVQAANATAHNNKSTRGGT 528
Cdd:PRK13914 332 --TPSKNTNTNTNSNTNTNSNTNANQGSS 358
PTZ00121 PTZ00121
MAEBL; Provisional
317-435 5.57e-03

MAEBL; Provisional


Pssm-ID: 173412 [Multi-domain]  Cd Length: 2084  Bit Score: 40.51  E-value: 5.57e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 929773718  317 EASKEGAIDGEKSDEVKKETAGESGGSTGASKDEGGKKAD----KSSVPSKAEESGKKVANK---DGGKKNVEDVRKdSA 389
Cdd:PTZ00121 1395 EAKKKAEEDKKKADELKKAAAAKKKADEAKKKAEEKKKADeakkKAEEAKKADEAKKKAEEAkkaEEAKKKAEEAKK-AD 1473
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 929773718  390 QVEKPKKPATLAERVAANKKDGDSKKKDEPEKPNAKANLESAKGRE 435
Cdd:PTZ00121 1474 EAKKKAEEAKKADEAKKKAEEAKKKADEAKKAAEAKKKADEAKKAE 1519
Pneumo_att_G pfam05539
Pneumovirinae attachment membrane glycoprotein G;
453-569 6.61e-03

Pneumovirinae attachment membrane glycoprotein G;


Pssm-ID: 114270 [Multi-domain]  Cd Length: 408  Bit Score: 39.65  E-value: 6.61e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 929773718  453 TQTSTQNTPQAKAPTQTPAPAPAQPQTGKAGGSLLPTPGTGGNNTQINGGPQ-------KHTQAQVQAANATAHNNKSTR 525
Cdd:pfam05539 182 TEVSHPTYPSQVTPQSQPATQGHQTATANQRLSSTEPVGTQGTTTSSNPEPQtepppsqRGPSGSPQHPPSTTSQDQSTT 261
                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|
gi 929773718  526 GGTQGSGERRRY--SRGGARQVANANTGAPVP----TQKPTDMPEFDMQT 569
Cdd:pfam05539 262 GDGQEHTQRRKTppATSNRRSPHSTATPPPTTkrqeTGRPTPRPTATTQS 311
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH