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Conserved domains on  [gi|568946013|ref|XP_006540165|]
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zinc finger CCCH domain-containing protein 4 isoform X1 [Mus musculus]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
zf-CCCH_4 pfam18044
CCCH-type zinc finger; This short zinc binding domain has the pattern of three cysteines and ...
 393-414 1.65e-07

CCCH-type zinc finger; This short zinc binding domain has the pattern of three cysteines and one histidine to coordinate the zinc ion. This domain is found in a wide variety of proteins such as E3 ligases.


:

Pssm-ID: 465626  Cd Length: 22  Bit Score: 48.35  E-value: 1.65e-07
                           10        20
                   ....*....|....*....|..
gi 568946013   393 VICKYFVEGRCTWGDHCNFSHD 414
Cdd:pfam18044    1 RLCRYFQKGGCRYGDNCRFSHD 22
PHA03247 super family cl33720
large tegument protein UL36; Provisional
 993-1279 2.68e-07

large tegument protein UL36; Provisional


The actual alignment was detected with superfamily member PHA03247:

Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 55.71  E-value: 2.68e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568946013  993 PLPIPKQDVPPV-PAALQSLPALDPRLHR----------STPPGPPNTRQRPGSTDPSTSGSNLPDFELLSRILKTVNVN 1061
Cdd:PHA03247 2560 PPAAPDRSVPPPrPAPRPSEPAVTSRARRpdappqsarpRAPVDDRGDPRGPAPPSPLPPDTHAPDPPPPSPSPAANEPD 2639

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568946013 1062 TPGQSEKPSDPRVRKTPTDPRLQKPADPVAASRAAKPC--PTEASPPAASP-------SGDSSPPATAPYDPRVLAAGGL 1132
Cdd:PHA03247 2640 PHPPPTVPPPERPRDDPAPGRVSRPRRARRLGRAAQASspPQRPRRRAARPtvgsltsLADPPPPPPTPEPAPHALVSAT 2719

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568946013 1133 GQGSSSGQSSVLSGISLYDPRTPNAGGKTAEPASDTsAQPKGPEGNGKGSASKAKEPPFVRKSALEQPETGKASTDGATA 1212
Cdd:PHA03247 2720 PLPPGPAAARQASPALPAAPAPPAVPAGPATPGGPA-RPARPPTTAGPPAPAPPAAPAAGPPRRLTRPAVASLSESRESL 2798

                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 568946013 1213 TDRYNSYNRPRPKATAAPTAASSTPPPEGATPQPGVHNLPVPTLFGTVKPAPKTG----TGSPFAGNSPAR 1279
Cdd:PHA03247 2799 PSPWDPADPPAAVLAPAAALPPAASPAGPLPPPTSAQPTAPPPPPGPPPPSLPLGgsvaPGGDVRRRPPSR 2869
ZnF_C3H1 smart00356
zinc finger;
420-444 1.32e-05

zinc finger;


:

Pssm-ID: 214632 [Multi-domain]  Cd Length: 27  Bit Score: 43.00  E-value: 1.32e-05
                            10        20
                    ....*....|....*....|....*
gi 568946013    420 KRELCKFYITGFCARAENCPYMHGD 444
Cdd:smart00356    3 KTELCKFFKRGYCPRGDRCKFAHPL 27
OmdA pfam13376
Bacteriocin-protection, YdeI or OmpD-Associated; This is a family of archaeal and bacterial ...
 773-798 3.71e-03

Bacteriocin-protection, YdeI or OmpD-Associated; This is a family of archaeal and bacterial proteins predicted to be periplasmic. YdeI is important for resistance to polymyxin B in broth and for bacterial survival in mice upon oral, but not intraperitoneal inoculation, suggesting a role for YdeI in the gastrointestinal tract of mice. Production of the ydeI gene is regulated by the Rcs (regulator of capsule synthesis) phospho-relay system pathway independently of RcsA, and additionally transcription of the protein is regulated by the stationary-phase sigma factor, RpoS (sigma-S). YdeI confers protection against cationic AMPs (Antimicrobial peptides) or bacteriocins in conjunction with the general porin Omp, thus justifying its name of OmdA, for OmpD-Associated protein.


:

Pssm-ID: 433158  Cd Length: 60  Bit Score: 37.05  E-value: 3.71e-03
                           10        20
                   ....*....|....*....|....*.
gi 568946013   773 PSAQRALYLRIQQKQQEEERARRLAE 798
Cdd:pfam13376   27 PSYRREYLLWISSAKRPETRAKRIAK 52
PHA03247 super family cl33720
large tegument protein UL36; Provisional
 732-1129 8.77e-03

large tegument protein UL36; Provisional


The actual alignment was detected with superfamily member PHA03247:

Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 40.69  E-value: 8.77e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568946013  732 EELPGQPGEPLFPEHPLEP-DSFPEGGPPGRPKAGAGVPDFLPSAQRA----LYLRIQQKQQEEERARRLAESSKQDREN 806
Cdd:PHA03247 2586 ARRPDAPPQSARPRAPVDDrGDPRGPAPPSPLPPDTHAPDPPPPSPSPaanePDPHPPPTVPPPERPRDDPAPGRVSRPR 2665

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568946013  807 EEGDTGNWYSSDEDEGGSSVTSILKTLRQQTSS-RPQASVGEPSSsglgdprlqKGHPTGSRLSDPRLSRDPRLSRHAET 885
Cdd:PHA03247 2666 RARRLGRAAQASSPPQRPRRRAARPTVGSLTSLaDPPPPPPTPEP---------APHALVSATPLPPGPAAARQASPALP 2736

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568946013  886 SGGSGPGDSGPSDPRLARALPTSKAEGSLHSSPAGPSSSKGQPPAEEEEGerALREKAVNIPLDPLPGHPLRDPrsqlqq 965
Cdd:PHA03247 2737 AAPAPPAVPAGPATPGGPARPARPPTTAGPPAPAPPAAPAAGPPRRLTRP--AVASLSESRESLPSPWDPADPP------ 2808

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568946013  966 fshikkdVTLSKPSFARTVLWNPEDLIPLPIPKQDVPPVPAALQSLPALdPRLHRSTPPGPPNTRQRPGSTDPSTSGSNL 1045
Cdd:PHA03247 2809 -------AAVLAPAAALPPAASPAGPLPPPTSAQPTAPPPPPGPPPPSL-PLGGSVAPGGDVRRRPPSRSPAAKPAAPAR 2880

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568946013 1046 PDFELLSR----------ILKTVNVNTPGQSEKPSDPRVRKTPTDPRLQKPADPVAASRAAKPCPTEASPPAASPSGDSS 1115
Cdd:PHA03247 2881 PPVRRLARpavsrstesfALPPDQPERPPQPQAPPPPQPQPQPPPPPQPQPPPPPPPRPQPPLAPTTDPAGAGEPSGAVP 2960

                         410
                  ....*....|....
gi 568946013 1116 PPATAPYDPRVLAA 1129
Cdd:PHA03247 2961 QPWLGALVPGRVAV 2974
 
Name Accession Description Interval E-value
zf-CCCH_4 pfam18044
CCCH-type zinc finger; This short zinc binding domain has the pattern of three cysteines and ...
 393-414 1.65e-07

CCCH-type zinc finger; This short zinc binding domain has the pattern of three cysteines and one histidine to coordinate the zinc ion. This domain is found in a wide variety of proteins such as E3 ligases.


Pssm-ID: 465626  Cd Length: 22  Bit Score: 48.35  E-value: 1.65e-07
                           10        20
                   ....*....|....*....|..
gi 568946013   393 VICKYFVEGRCTWGDHCNFSHD 414
Cdd:pfam18044    1 RLCRYFQKGGCRYGDNCRFSHD 22
PHA03247 PHA03247
large tegument protein UL36; Provisional
 993-1279 2.68e-07

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 55.71  E-value: 2.68e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568946013  993 PLPIPKQDVPPV-PAALQSLPALDPRLHR----------STPPGPPNTRQRPGSTDPSTSGSNLPDFELLSRILKTVNVN 1061
Cdd:PHA03247 2560 PPAAPDRSVPPPrPAPRPSEPAVTSRARRpdappqsarpRAPVDDRGDPRGPAPPSPLPPDTHAPDPPPPSPSPAANEPD 2639

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568946013 1062 TPGQSEKPSDPRVRKTPTDPRLQKPADPVAASRAAKPC--PTEASPPAASP-------SGDSSPPATAPYDPRVLAAGGL 1132
Cdd:PHA03247 2640 PHPPPTVPPPERPRDDPAPGRVSRPRRARRLGRAAQASspPQRPRRRAARPtvgsltsLADPPPPPPTPEPAPHALVSAT 2719

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568946013 1133 GQGSSSGQSSVLSGISLYDPRTPNAGGKTAEPASDTsAQPKGPEGNGKGSASKAKEPPFVRKSALEQPETGKASTDGATA 1212
Cdd:PHA03247 2720 PLPPGPAAARQASPALPAAPAPPAVPAGPATPGGPA-RPARPPTTAGPPAPAPPAAPAAGPPRRLTRPAVASLSESRESL 2798

                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 568946013 1213 TDRYNSYNRPRPKATAAPTAASSTPPPEGATPQPGVHNLPVPTLFGTVKPAPKTG----TGSPFAGNSPAR 1279
Cdd:PHA03247 2799 PSPWDPADPPAAVLAPAAALPPAASPAGPLPPPTSAQPTAPPPPPGPPPPSLPLGgsvaPGGDVRRRPPSR 2869
ZnF_C3H1 smart00356
zinc finger;
420-444 1.32e-05

zinc finger;


Pssm-ID: 214632 [Multi-domain]  Cd Length: 27  Bit Score: 43.00  E-value: 1.32e-05
                            10        20
                    ....*....|....*....|....*
gi 568946013    420 KRELCKFYITGFCARAENCPYMHGD 444
Cdd:smart00356    3 KTELCKFFKRGYCPRGDRCKFAHPL 27
YTH1 COG5084
Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin ...
 384-466 5.35e-05

Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only];


Pssm-ID: 227416 [Multi-domain]  Cd Length: 285  Bit Score: 46.79  E-value: 5.35e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568946013  384 HQQSDKKGKVICKYFVEGRCTWGDHCNFSHDIELPKKREL-CKFY-ITGFCARAENCPYMHGDfP------CKLY--HTT 453
Cdd:COG5084    96 HVNPVLSSSVVCKFFLRGLCKSGFSCEFLHEYDLRSSQGPpCRSFsLKGSCSSGPSCGYSHID-PdsfagnCDQYsgATY 174

                          90
                  ....*....|...
gi 568946013  454 GNCINGDDCMFSH 466
Cdd:COG5084   175 GFCPLGASCKFSH 187
zf_CCCH_4 pfam18345
Zinc finger domain; This is a zinc finger domain found in Zinc finger CCCH-type with G patch ...
 424-442 1.80e-04

Zinc finger domain; This is a zinc finger domain found in Zinc finger CCCH-type with G patch domain-containing proteins such as ZIP. Functional studies indicate that ZIP specifically targets EGFR and represses its transcription, and that the zinc finger and the coiled-coil domains are central to that process.


Pssm-ID: 465719 [Multi-domain]  Cd Length: 19  Bit Score: 39.71  E-value: 1.80e-04
                           10
                   ....*....|....*....
gi 568946013   424 CKFYITGFCARAENCPYMH 442
Cdd:pfam18345    1 CKFFLKGRCRYGDKCRFAH 19
ZnF_C3H1 smart00356
zinc finger;
393-414 1.43e-03

zinc finger;


Pssm-ID: 214632 [Multi-domain]  Cd Length: 27  Bit Score: 37.22  E-value: 1.43e-03
                            10        20
                    ....*....|....*....|..
gi 568946013    393 VICKYFVEGRCTWGDHCNFSHD 414
Cdd:smart00356    5 ELCKFFKRGYCPRGDRCKFAHP 26
OmdA pfam13376
Bacteriocin-protection, YdeI or OmpD-Associated; This is a family of archaeal and bacterial ...
 773-798 3.71e-03

Bacteriocin-protection, YdeI or OmpD-Associated; This is a family of archaeal and bacterial proteins predicted to be periplasmic. YdeI is important for resistance to polymyxin B in broth and for bacterial survival in mice upon oral, but not intraperitoneal inoculation, suggesting a role for YdeI in the gastrointestinal tract of mice. Production of the ydeI gene is regulated by the Rcs (regulator of capsule synthesis) phospho-relay system pathway independently of RcsA, and additionally transcription of the protein is regulated by the stationary-phase sigma factor, RpoS (sigma-S). YdeI confers protection against cationic AMPs (Antimicrobial peptides) or bacteriocins in conjunction with the general porin Omp, thus justifying its name of OmdA, for OmpD-Associated protein.


Pssm-ID: 433158  Cd Length: 60  Bit Score: 37.05  E-value: 3.71e-03
                           10        20
                   ....*....|....*....|....*.
gi 568946013   773 PSAQRALYLRIQQKQQEEERARRLAE 798
Cdd:pfam13376   27 PSYRREYLLWISSAKRPETRAKRIAK 52
PHA03247 PHA03247
large tegument protein UL36; Provisional
 732-1129 8.77e-03

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 40.69  E-value: 8.77e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568946013  732 EELPGQPGEPLFPEHPLEP-DSFPEGGPPGRPKAGAGVPDFLPSAQRA----LYLRIQQKQQEEERARRLAESSKQDREN 806
Cdd:PHA03247 2586 ARRPDAPPQSARPRAPVDDrGDPRGPAPPSPLPPDTHAPDPPPPSPSPaanePDPHPPPTVPPPERPRDDPAPGRVSRPR 2665

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568946013  807 EEGDTGNWYSSDEDEGGSSVTSILKTLRQQTSS-RPQASVGEPSSsglgdprlqKGHPTGSRLSDPRLSRDPRLSRHAET 885
Cdd:PHA03247 2666 RARRLGRAAQASSPPQRPRRRAARPTVGSLTSLaDPPPPPPTPEP---------APHALVSATPLPPGPAAARQASPALP 2736

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568946013  886 SGGSGPGDSGPSDPRLARALPTSKAEGSLHSSPAGPSSSKGQPPAEEEEGerALREKAVNIPLDPLPGHPLRDPrsqlqq 965
Cdd:PHA03247 2737 AAPAPPAVPAGPATPGGPARPARPPTTAGPPAPAPPAAPAAGPPRRLTRP--AVASLSESRESLPSPWDPADPP------ 2808

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568946013  966 fshikkdVTLSKPSFARTVLWNPEDLIPLPIPKQDVPPVPAALQSLPALdPRLHRSTPPGPPNTRQRPGSTDPSTSGSNL 1045
Cdd:PHA03247 2809 -------AAVLAPAAALPPAASPAGPLPPPTSAQPTAPPPPPGPPPPSL-PLGGSVAPGGDVRRRPPSRSPAAKPAAPAR 2880

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568946013 1046 PDFELLSR----------ILKTVNVNTPGQSEKPSDPRVRKTPTDPRLQKPADPVAASRAAKPCPTEASPPAASPSGDSS 1115
Cdd:PHA03247 2881 PPVRRLARpavsrstesfALPPDQPERPPQPQAPPPPQPQPQPPPPPQPQPPPPPPPRPQPPLAPTTDPAGAGEPSGAVP 2960

                         410
                  ....*....|....
gi 568946013 1116 PPATAPYDPRVLAA 1129
Cdd:PHA03247 2961 QPWLGALVPGRVAV 2974
 
Name Accession Description Interval E-value
zf-CCCH_4 pfam18044
CCCH-type zinc finger; This short zinc binding domain has the pattern of three cysteines and ...
 393-414 1.65e-07

CCCH-type zinc finger; This short zinc binding domain has the pattern of three cysteines and one histidine to coordinate the zinc ion. This domain is found in a wide variety of proteins such as E3 ligases.


Pssm-ID: 465626  Cd Length: 22  Bit Score: 48.35  E-value: 1.65e-07
                           10        20
                   ....*....|....*....|..
gi 568946013   393 VICKYFVEGRCTWGDHCNFSHD 414
Cdd:pfam18044    1 RLCRYFQKGGCRYGDNCRFSHD 22
PHA03247 PHA03247
large tegument protein UL36; Provisional
 993-1279 2.68e-07

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 55.71  E-value: 2.68e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568946013  993 PLPIPKQDVPPV-PAALQSLPALDPRLHR----------STPPGPPNTRQRPGSTDPSTSGSNLPDFELLSRILKTVNVN 1061
Cdd:PHA03247 2560 PPAAPDRSVPPPrPAPRPSEPAVTSRARRpdappqsarpRAPVDDRGDPRGPAPPSPLPPDTHAPDPPPPSPSPAANEPD 2639

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568946013 1062 TPGQSEKPSDPRVRKTPTDPRLQKPADPVAASRAAKPC--PTEASPPAASP-------SGDSSPPATAPYDPRVLAAGGL 1132
Cdd:PHA03247 2640 PHPPPTVPPPERPRDDPAPGRVSRPRRARRLGRAAQASspPQRPRRRAARPtvgsltsLADPPPPPPTPEPAPHALVSAT 2719

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568946013 1133 GQGSSSGQSSVLSGISLYDPRTPNAGGKTAEPASDTsAQPKGPEGNGKGSASKAKEPPFVRKSALEQPETGKASTDGATA 1212
Cdd:PHA03247 2720 PLPPGPAAARQASPALPAAPAPPAVPAGPATPGGPA-RPARPPTTAGPPAPAPPAAPAAGPPRRLTRPAVASLSESRESL 2798

                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 568946013 1213 TDRYNSYNRPRPKATAAPTAASSTPPPEGATPQPGVHNLPVPTLFGTVKPAPKTG----TGSPFAGNSPAR 1279
Cdd:PHA03247 2799 PSPWDPADPPAAVLAPAAALPPAASPAGPLPPPTSAQPTAPPPPPGPPPPSLPLGgsvaPGGDVRRRPPSR 2869
zf_CCCH_4 pfam18345
Zinc finger domain; This is a zinc finger domain found in Zinc finger CCCH-type with G patch ...
 395-413 4.51e-06

Zinc finger domain; This is a zinc finger domain found in Zinc finger CCCH-type with G patch domain-containing proteins such as ZIP. Functional studies indicate that ZIP specifically targets EGFR and represses its transcription, and that the zinc finger and the coiled-coil domains are central to that process.


Pssm-ID: 465719 [Multi-domain]  Cd Length: 19  Bit Score: 44.33  E-value: 4.51e-06
                           10
                   ....*....|....*....
gi 568946013   395 CKYFVEGRCTWGDHCNFSH 413
Cdd:pfam18345    1 CKFFLKGRCRYGDKCRFAH 19
PHA03247 PHA03247
large tegument protein UL36; Provisional
 906-1264 4.61e-06

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 51.48  E-value: 4.61e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568946013  906 PTSKAEGSLHSSPAGPSSSKGQPPAEEEEgERALREKAVNIPLDPLPGHPLRDPRSQlqqfshikkdvTLSKPSFARTVL 985
Cdd:PHA03247 2604 DRGDPRGPAPPSPLPPDTHAPDPPPPSPS-PAANEPDPHPPPTVPPPERPRDDPAPG-----------RVSRPRRARRLG 2671

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568946013  986 WNPEDLIPLPIPKQdvPPVPAALQSLPAL-DPrlhrstPPGPPNTRQRPGSTDPSTSGSNLPDFELLSRILKTVNVNTPG 1064
Cdd:PHA03247 2672 RAAQASSPPQRPRR--RAARPTVGSLTSLaDP------PPPPPTPEPAPHALVSATPLPPGPAAARQASPALPAAPAPPA 2743

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568946013 1065 QSEKPSDP-RVRKTPTDPRLQKPADPVAASRAAKPCPTEASPPAASPSGDSSPPATAPYDPRVLAAGGLGQGSSSGQSSV 1143
Cdd:PHA03247 2744 VPAGPATPgGPARPARPPTTAGPPAPAPPAAPAAGPPRRLTRPAVASLSESRESLPSPWDPADPPAAVLAPAAALPPAAS 2823

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568946013 1144 lsgislydPRTPNAGGKTAEPASDTSAQPKGPEGNGKGsASKAKEPPFVRKSALEQPetgkASTDGATATDRYNSYNRPR 1223
Cdd:PHA03247 2824 --------PAGPLPPPTSAQPTAPPPPPGPPPPSLPLG-GSVAPGGDVRRRPPSRSP----AAKPAAPARPPVRRLARPA 2890

                         330       340       350       360
                  ....*....|....*....|....*....|....*....|.
gi 568946013 1224 PKATAAPTAASSTPPPEGATPQPGVHNLPVPTLFGTVKPAP 1264
Cdd:PHA03247 2891 VSRSTESFALPPDQPERPPQPQAPPPPQPQPQPPPPPQPQP 2931
ZnF_C3H1 smart00356
zinc finger;
420-444 1.32e-05

zinc finger;


Pssm-ID: 214632 [Multi-domain]  Cd Length: 27  Bit Score: 43.00  E-value: 1.32e-05
                            10        20
                    ....*....|....*....|....*
gi 568946013    420 KRELCKFYITGFCARAENCPYMHGD 444
Cdd:smart00356    3 KTELCKFFKRGYCPRGDRCKFAHPL 27
PHA03378 PHA03378
EBNA-3B; Provisional
 1016-1207 1.94e-05

EBNA-3B; Provisional


Pssm-ID: 223065 [Multi-domain]  Cd Length: 991  Bit Score: 49.30  E-value: 1.94e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568946013 1016 PRLHRSTPPGPPNTRQR-PGSTDPSTSGSNLPDFELLSRILKTVNVNTPGQSEKPSDPRVRKTPTDPRLQK----PADPV 1090
Cdd:PHA03378  598 PVPHPSQTPEPPTTQSHiPETSAPRQWPMPLRPIPMRPLRMQPITFNVLVFPTPHQPPQVEITPYKPTWTQighiPYQPS 677

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568946013 1091 ----AASRAAKPCPTEASPPAASPsGDSSPPATAPYDPRVLAAGGLGQGSSSGQSSVLSGISLYDPRTPNAGGKTAEPAS 1166
Cdd:PHA03378  678 ptgaNTMLPIQWAPGTMQPPPRAP-TPMRPPAAPPGRAQRPAAATGRARPPAAAPGRARPPAAAPGRARPPAAAPGRARP 756

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|.
gi 568946013 1167 DTSAQPKGPEGNGKGSASKAKEPPFVRKSALEQPETGKAST 1207
Cdd:PHA03378  757 PAAAPGRARPPAAAPGAPTPQPPPQAPPAPQQRPRGAPTPQ 797
YTH1 COG5084
Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin ...
 384-466 5.35e-05

Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only];


Pssm-ID: 227416 [Multi-domain]  Cd Length: 285  Bit Score: 46.79  E-value: 5.35e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568946013  384 HQQSDKKGKVICKYFVEGRCTWGDHCNFSHDIELPKKREL-CKFY-ITGFCARAENCPYMHGDfP------CKLY--HTT 453
Cdd:COG5084    96 HVNPVLSSSVVCKFFLRGLCKSGFSCEFLHEYDLRSSQGPpCRSFsLKGSCSSGPSCGYSHID-PdsfagnCDQYsgATY 174

                          90
                  ....*....|...
gi 568946013  454 GNCINGDDCMFSH 466
Cdd:COG5084   175 GFCPLGASCKFSH 187
zf_CCCH_4 pfam18345
Zinc finger domain; This is a zinc finger domain found in Zinc finger CCCH-type with G patch ...
 424-442 1.80e-04

Zinc finger domain; This is a zinc finger domain found in Zinc finger CCCH-type with G patch domain-containing proteins such as ZIP. Functional studies indicate that ZIP specifically targets EGFR and represses its transcription, and that the zinc finger and the coiled-coil domains are central to that process.


Pssm-ID: 465719 [Multi-domain]  Cd Length: 19  Bit Score: 39.71  E-value: 1.80e-04
                           10
                   ....*....|....*....
gi 568946013   424 CKFYITGFCARAENCPYMH 442
Cdd:pfam18345    1 CKFFLKGRCRYGDKCRFAH 19
PHA03307 PHA03307
transcriptional regulator ICP4; Provisional
 916-1277 2.58e-04

transcriptional regulator ICP4; Provisional


Pssm-ID: 223039 [Multi-domain]  Cd Length: 1352  Bit Score: 45.55  E-value: 2.58e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568946013  916 SSPAGPSSSKGQPPAEEEEGERALREKAVNIPLDPLPGHPLRDPRSQlqqfshikKDVTLSKPSFARTVLWNPEDLIPLP 995
Cdd:PHA03307  106 PTPPGPSSPDPPPPTPPPASPPPSPAPDLSEMLRPVGSPGPPPAASP--------PAAGASPAAVASDAASSRQAALPLS 177

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568946013  996 IPKQDVPPVPAALQSLPALDPRLHRSTPPGPPNTRQRPGSTDPSTSGSNLPDFELLSrilKTVNVNTPGQSEKPSDPRVR 1075
Cdd:PHA03307  178 SPEETARAPSSPPAEPPPSTPPAAASPRPPRRSSPISASASSPAPAPGRSAADDAGA---SSSDSSSSESSGCGWGPENE 254

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568946013 1076 KTPTDPRLQKPADPVAASRAAKPCPTEASPPAASPSGDSSPPATAPYDPRVLAAgglgqgsssgqsSVLSGISLYDPRTP 1155
Cdd:PHA03307  255 CPLPRPAPITLPTRIWEASGWNGPSSRPGPASSSSSPRERSPSPSPSSPGSGPA------------PSSPRASSSSSSSR 322

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568946013 1156 NAGGKTAEPASDTSAQPKGPEGNGKG-SASKAKEPPFVRKSALEQPETGKASTDGATATDRYNSYNRPRPKATAAPTAAS 1234
Cdd:PHA03307  323 ESSSSSTSSSSESSRGAAVSPGPSPSrSPSPSRPPPPADPSSPRKRPRPSRAPSSPAASAGRPTRRRARAAVAGRARRRD 402

                         330       340       350       360
                  ....*....|....*....|....*....|....*....|...
gi 568946013 1235 STPPPEGATPQPGVHNLPVPTLFGTVKPAPKTGTGSPFAGNSP 1277
Cdd:PHA03307  403 ATGRFPAGRPRPSPLDAGAASGAFYARYPLLTPSGEPWPGSPP 445
zf-CCCH pfam00642
Zinc finger C-x8-C-x5-C-x3-H type (and similar);
419-444 3.56e-04

Zinc finger C-x8-C-x5-C-x3-H type (and similar);


Pssm-ID: 459885 [Multi-domain]  Cd Length: 27  Bit Score: 39.10  E-value: 3.56e-04
                           10        20
                   ....*....|....*....|....*..
gi 568946013   419 KKRELCKFY-ITGFCARAENCPYMHGD 444
Cdd:pfam00642    1 YKTELCRFFlRTGYCKYGDRCKFAHGQ 27
PRK12323 PRK12323
DNA polymerase III subunit gamma/tau;
1063-1278 3.78e-04

DNA polymerase III subunit gamma/tau;


Pssm-ID: 237057 [Multi-domain]  Cd Length: 700  Bit Score: 44.87  E-value: 3.78e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568946013 1063 PGQSEKPSDPRVRKTPTD----PRLQKPADPVAASRAAKPCPTEASPPAASPSGDSSPPATAPYDPRVLAAGGLGQGSSS 1138
Cdd:PRK12323  365 PGQSGGGAGPATAAAAPVaqpaPAAAAPAAAAPAPAAPPAAPAAAPAAAAAARAVAAAPARRSPAPEALAAARQASARGP 444

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568946013 1139 GQSSVLSGISLYDP----RTPNAGgktAEPASDTSAQPKGPEGNGKGSASKAKEPPFVRKSALEQPETGKASTDGATATD 1214
Cdd:PRK12323  445 GGAPAPAPAPAAAPaaaaRPAAAG---PRPVAAAAAAAPARAAPAAAPAPADDDPPPWEELPPEFASPAPAQPDAAPAGW 521

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 568946013 1215 RYNSYNRPRPKATAAPTAASSTPPPEGATPQPGVHNLPVPTlfGTVKPAPKTGTGSPFAGNSPA 1278
Cdd:PRK12323  522 VAESIPDPATADPDDAFETLAPAPAAAPAPRAAAATEPVVA--PRPPRASASGLPDMFDGDWPA 583
PRK14951 PRK14951
DNA polymerase III subunits gamma and tau; Provisional
 1063-1189 8.86e-04

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 237865 [Multi-domain]  Cd Length: 618  Bit Score: 43.55  E-value: 8.86e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568946013 1063 PGQSEKPSDPRVRKTPTDPRLQKPA-----DPVAASRAAKPCPTEASPPAASPSGDSSPPATAPydprVLAAGGLGQGSS 1137
Cdd:PRK14951  366 PAAAAEAAAPAEKKTPARPEAAAPAaapvaQAAAAPAPAAAPAAAASAPAAPPAAAPPAPVAAP----AAAAPAAAPAAA 441

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|..
gi 568946013 1138 SGQSSVLSGISLYDPRTPNAGGKTAEPASDTSAQPKGPEGNGKGSASKAKEP 1189
Cdd:PRK14951  442 PAAVALAPAPPAQAAPETVAIPVRVAPEPAVASAAPAPAAAPAAARLTPTEE 493
ZnF_C3H1 smart00356
zinc finger;
393-414 1.43e-03

zinc finger;


Pssm-ID: 214632 [Multi-domain]  Cd Length: 27  Bit Score: 37.22  E-value: 1.43e-03
                            10        20
                    ....*....|....*....|..
gi 568946013    393 VICKYFVEGRCTWGDHCNFSHD 414
Cdd:smart00356    5 ELCKFFKRGYCPRGDRCKFAHP 26
OmdA pfam13376
Bacteriocin-protection, YdeI or OmpD-Associated; This is a family of archaeal and bacterial ...
 773-798 3.71e-03

Bacteriocin-protection, YdeI or OmpD-Associated; This is a family of archaeal and bacterial proteins predicted to be periplasmic. YdeI is important for resistance to polymyxin B in broth and for bacterial survival in mice upon oral, but not intraperitoneal inoculation, suggesting a role for YdeI in the gastrointestinal tract of mice. Production of the ydeI gene is regulated by the Rcs (regulator of capsule synthesis) phospho-relay system pathway independently of RcsA, and additionally transcription of the protein is regulated by the stationary-phase sigma factor, RpoS (sigma-S). YdeI confers protection against cationic AMPs (Antimicrobial peptides) or bacteriocins in conjunction with the general porin Omp, thus justifying its name of OmdA, for OmpD-Associated protein.


Pssm-ID: 433158  Cd Length: 60  Bit Score: 37.05  E-value: 3.71e-03
                           10        20
                   ....*....|....*....|....*.
gi 568946013   773 PSAQRALYLRIQQKQQEEERARRLAE 798
Cdd:pfam13376   27 PSYRREYLLWISSAKRPETRAKRIAK 52
PHA03269 PHA03269
envelope glycoprotein C; Provisional
 993-1119 5.44e-03

envelope glycoprotein C; Provisional


Pssm-ID: 165527 [Multi-domain]  Cd Length: 566  Bit Score: 40.87  E-value: 5.44e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568946013  993 PLPIPKQDVPPVPAALQSLPALDPRLHRSTPPGPpntrqrpgSTDPSTSGSNLPDFELlsrilktvnVNTPGQSEKPsDP 1072
Cdd:PHA03269   23 NTNIPIPELHTSAATQKPDPAPAPHQAASRAPDP--------AVAPTSAASRKPDLAQ---------APTPAASEKF-DP 84

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*..
gi 568946013 1073 RVRktPTDPRLQKPADPVAASRAAKPCPTEASPPAASPSGDSSPPAT 1119
Cdd:PHA03269   85 APA--PHQAASRAPDPAVAPQLAAAPKPDAAEAFTSAAQAHEAPADA 129
PRK07003 PRK07003
DNA polymerase III subunit gamma/tau;
995-1287 5.85e-03

DNA polymerase III subunit gamma/tau;


Pssm-ID: 235906 [Multi-domain]  Cd Length: 830  Bit Score: 40.99  E-value: 5.85e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568946013  995 PIPKQDVPPVPAALQSLPALDPRLHRSTPPGPPNTRQRPGSTDPSTSGSNLPdfellsrilkTVNVNTPGQSekpSDPRV 1074
Cdd:PRK07003  374 ARVAGAVPAPGARAAAAVGASAVPAVTAVTGAAGAALAPKAAAAAAATRAEA----------PPAAPAPPAT---ADRGD 440

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568946013 1075 RKTPTDPRLQKPADpvAASRAAKPCPTEASPPAASPSGDSSPPATAPYDPRVLAAGGLGQGSSSGQssvlsgislydPRT 1154
Cdd:PRK07003  441 DAADGDAPVPAKAN--ARASADSRCDERDAQPPADSGSASAPASDAPPDAAFEPAPRAAAPSAATP-----------AAV 507

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568946013 1155 PNAGGKTAEPASDTSAQPKGPEGNGKGSASKAKEPPFVRKSAleqpetgKASTDGATATDRYNSYNRPRPKATAAPTAAS 1234
Cdd:PRK07003  508 PDARAPAAASREDAPAAAAPPAPEARPPTPAAAAPAARAGGA-------AAALDVLRNAGMRVSSDRGARAAAAAKPAAA 580

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|...
gi 568946013 1235 STPPPEGATPQPGVhnlPVPTLfgtvkPAPKTGTGSPFAGNSPAREGEQDAGS 1287
Cdd:PRK07003  581 PAAAPKPAAPRVAV---QVPTP-----RARAATGDAPPNGAARAEQAAESRGA 625
PHA03247 PHA03247
large tegument protein UL36; Provisional
 732-1129 8.77e-03

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 40.69  E-value: 8.77e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568946013  732 EELPGQPGEPLFPEHPLEP-DSFPEGGPPGRPKAGAGVPDFLPSAQRA----LYLRIQQKQQEEERARRLAESSKQDREN 806
Cdd:PHA03247 2586 ARRPDAPPQSARPRAPVDDrGDPRGPAPPSPLPPDTHAPDPPPPSPSPaanePDPHPPPTVPPPERPRDDPAPGRVSRPR 2665

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568946013  807 EEGDTGNWYSSDEDEGGSSVTSILKTLRQQTSS-RPQASVGEPSSsglgdprlqKGHPTGSRLSDPRLSRDPRLSRHAET 885
Cdd:PHA03247 2666 RARRLGRAAQASSPPQRPRRRAARPTVGSLTSLaDPPPPPPTPEP---------APHALVSATPLPPGPAAARQASPALP 2736

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568946013  886 SGGSGPGDSGPSDPRLARALPTSKAEGSLHSSPAGPSSSKGQPPAEEEEGerALREKAVNIPLDPLPGHPLRDPrsqlqq 965
Cdd:PHA03247 2737 AAPAPPAVPAGPATPGGPARPARPPTTAGPPAPAPPAAPAAGPPRRLTRP--AVASLSESRESLPSPWDPADPP------ 2808

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568946013  966 fshikkdVTLSKPSFARTVLWNPEDLIPLPIPKQDVPPVPAALQSLPALdPRLHRSTPPGPPNTRQRPGSTDPSTSGSNL 1045
Cdd:PHA03247 2809 -------AAVLAPAAALPPAASPAGPLPPPTSAQPTAPPPPPGPPPPSL-PLGGSVAPGGDVRRRPPSRSPAAKPAAPAR 2880

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568946013 1046 PDFELLSR----------ILKTVNVNTPGQSEKPSDPRVRKTPTDPRLQKPADPVAASRAAKPCPTEASPPAASPSGDSS 1115
Cdd:PHA03247 2881 PPVRRLARpavsrstesfALPPDQPERPPQPQAPPPPQPQPQPPPPPQPQPPPPPPPRPQPPLAPTTDPAGAGEPSGAVP 2960

                         410
                  ....*....|....
gi 568946013 1116 PPATAPYDPRVLAA 1129
Cdd:PHA03247 2961 QPWLGALVPGRVAV 2974
 
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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