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Conserved domains on  [gi|161169020|ref|NP_941033|]
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zinc finger CCCH domain-containing protein 4 isoform 2 [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 ...
 344-365 1.54e-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: 1.54e-07
                           10        20
                   ....*....|....*....|..
gi 161169020   344 VICKYFVEGRCTWGDHCNFSHD 365
Cdd:pfam18044    1 RLCRYFQKGGCRYGDNCRFSHD 22
PHA03247 super family cl33720
large tegument protein UL36; Provisional
 944-1230 2.16e-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: 2.16e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 161169020  944 PLPIPKQDVPPV-PAALQSLPALDPRLHR----------STPPGPPNTRQRPGSTDPSTSGSNLPDFELLSRILKTVNVN 1012
Cdd:PHA03247 2560 PPAAPDRSVPPPrPAPRPSEPAVTSRARRpdappqsarpRAPVDDRGDPRGPAPPSPLPPDTHAPDPPPPSPSPAANEPD 2639

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 161169020 1013 TPGQSEKPSDPRVRKTPTDPRLQKPADPVAASRAAKPC--PTEASPPAASP-------SGDSSPPATAPYDPRVLAAGGL 1083
Cdd:PHA03247 2640 PHPPPTVPPPERPRDDPAPGRVSRPRRARRLGRAAQASspPQRPRRRAARPtvgsltsLADPPPPPPTPEPAPHALVSAT 2719

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 161169020 1084 GQGSSSGQSSVLSGISLYDPRTPNAGGKTAEPASDTsAQPKGPEGNGKGSASKAKEPPFVRKSALEQPETGKASTDGATA 1163
Cdd:PHA03247 2720 PLPPGPAAARQASPALPAAPAPPAVPAGPATPGGPA-RPARPPTTAGPPAPAPPAAPAAGPPRRLTRPAVASLSESRESL 2798

                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 161169020 1164 TDRYNSYNRPRPKATAAPTAASSTPPPEGATPQPGVHNLPVPTLFGTVKPAPKTG----TGSPFAGNSPAR 1230
Cdd:PHA03247 2799 PSPWDPADPPAAVLAPAAALPPAASPAGPLPPPTSAQPTAPPPPPGPPPPSLPLGgsvaPGGDVRRRPPSR 2869
ZnF_C3H1 smart00356
zinc finger;
371-395 1.29e-05

zinc finger;


:

Pssm-ID: 214632 [Multi-domain]  Cd Length: 27  Bit Score: 43.00  E-value: 1.29e-05
                            10        20
                    ....*....|....*....|....*
gi 161169020    371 KRELCKFYITGFCARAENCPYMHGD 395
Cdd:smart00356    3 KTELCKFFKRGYCPRGDRCKFAHPL 27
OmdA pfam13376
Bacteriocin-protection, YdeI or OmpD-Associated; This is a family of archaeal and bacterial ...
 724-749 3.57e-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: 3.57e-03
                           10        20
                   ....*....|....*....|....*.
gi 161169020   724 PSAQRALYLRIQQKQQEEERARRLAE 749
Cdd:pfam13376   27 PSYRREYLLWISSAKRPETRAKRIAK 52
PHA03247 super family cl33720
large tegument protein UL36; Provisional
 683-1080 6.46e-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: 41.08  E-value: 6.46e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 161169020  683 EELPGQPGEPLFPEHPLEP-DSFPEGGPPGRPKAGAGVPDFLPSAQRA----LYLRIQQKQQEEERARRLAESSKQDREN 757
Cdd:PHA03247 2586 ARRPDAPPQSARPRAPVDDrGDPRGPAPPSPLPPDTHAPDPPPPSPSPaanePDPHPPPTVPPPERPRDDPAPGRVSRPR 2665

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 161169020  758 EEGDTGNWYSSDEDEGGSSVTSILKTLRQQTSS-RPQASVGEPSSsglgdprlqKGHPTGSRLSDPRLSRDPRLSRHAET 836
Cdd:PHA03247 2666 RARRLGRAAQASSPPQRPRRRAARPTVGSLTSLaDPPPPPPTPEP---------APHALVSATPLPPGPAAARQASPALP 2736

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 161169020  837 SGGSGPGDSGPSDPRLARALPTSKAEGSLHSSPAGPSSSKGQPPAEEEEGerALREKAVNIPLDPLPGHPLRDPrsqlqq 916
Cdd:PHA03247 2737 AAPAPPAVPAGPATPGGPARPARPPTTAGPPAPAPPAAPAAGPPRRLTRP--AVASLSESRESLPSPWDPADPP------ 2808

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 161169020  917 fshikkdVTLSKPSFARTVLWNPEDLIPLPIPKQDVPPVPAALQSLPALdPRLHRSTPPGPPNTRQRPGSTDPSTSGSNL 996
Cdd:PHA03247 2809 -------AAVLAPAAALPPAASPAGPLPPPTSAQPTAPPPPPGPPPPSL-PLGGSVAPGGDVRRRPPSRSPAAKPAAPAR 2880

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 161169020  997 PDFELLSR----------ILKTVNVNTPGQSEKPSDPRVRKTPTDPRLQKPADPVAASRAAKPCPTEASPPAASPSGDSS 1066
Cdd:PHA03247 2881 PPVRRLARpavsrstesfALPPDQPERPPQPQAPPPPQPQPQPPPPPQPQPPPPPPPRPQPPLAPTTDPAGAGEPSGAVP 2960

                         410
                  ....*....|....
gi 161169020 1067 PPATAPYDPRVLAA 1080
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 ...
 344-365 1.54e-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: 1.54e-07
                           10        20
                   ....*....|....*....|..
gi 161169020   344 VICKYFVEGRCTWGDHCNFSHD 365
Cdd:pfam18044    1 RLCRYFQKGGCRYGDNCRFSHD 22
PHA03247 PHA03247
large tegument protein UL36; Provisional
 944-1230 2.16e-07

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 55.71  E-value: 2.16e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 161169020  944 PLPIPKQDVPPV-PAALQSLPALDPRLHR----------STPPGPPNTRQRPGSTDPSTSGSNLPDFELLSRILKTVNVN 1012
Cdd:PHA03247 2560 PPAAPDRSVPPPrPAPRPSEPAVTSRARRpdappqsarpRAPVDDRGDPRGPAPPSPLPPDTHAPDPPPPSPSPAANEPD 2639

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 161169020 1013 TPGQSEKPSDPRVRKTPTDPRLQKPADPVAASRAAKPC--PTEASPPAASP-------SGDSSPPATAPYDPRVLAAGGL 1083
Cdd:PHA03247 2640 PHPPPTVPPPERPRDDPAPGRVSRPRRARRLGRAAQASspPQRPRRRAARPtvgsltsLADPPPPPPTPEPAPHALVSAT 2719

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 161169020 1084 GQGSSSGQSSVLSGISLYDPRTPNAGGKTAEPASDTsAQPKGPEGNGKGSASKAKEPPFVRKSALEQPETGKASTDGATA 1163
Cdd:PHA03247 2720 PLPPGPAAARQASPALPAAPAPPAVPAGPATPGGPA-RPARPPTTAGPPAPAPPAAPAAGPPRRLTRPAVASLSESRESL 2798

                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 161169020 1164 TDRYNSYNRPRPKATAAPTAASSTPPPEGATPQPGVHNLPVPTLFGTVKPAPKTG----TGSPFAGNSPAR 1230
Cdd:PHA03247 2799 PSPWDPADPPAAVLAPAAALPPAASPAGPLPPPTSAQPTAPPPPPGPPPPSLPLGgsvaPGGDVRRRPPSR 2869
ZnF_C3H1 smart00356
zinc finger;
371-395 1.29e-05

zinc finger;


Pssm-ID: 214632 [Multi-domain]  Cd Length: 27  Bit Score: 43.00  E-value: 1.29e-05
                            10        20
                    ....*....|....*....|....*
gi 161169020    371 KRELCKFYITGFCARAENCPYMHGD 395
Cdd:smart00356    3 KTELCKFFKRGYCPRGDRCKFAHPL 27
YTH1 COG5084
Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin ...
 335-417 6.28e-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: 46.40  E-value: 6.28e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 161169020  335 HQQSDKKGKVICKYFVEGRCTWGDHCNFSHDIELPKKREL-CKFY-ITGFCARAENCPYMHGDfPCKLY--------HTT 404
Cdd:COG5084    96 HVNPVLSSSVVCKFFLRGLCKSGFSCEFLHEYDLRSSQGPpCRSFsLKGSCSSGPSCGYSHID-PDSFAgncdqysgATY 174

                          90
                  ....*....|...
gi 161169020  405 GNCINGDDCMFSH 417
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 ...
 375-393 1.74e-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: 1.74e-04
                           10
                   ....*....|....*....
gi 161169020   375 CKFYITGFCARAENCPYMH 393
Cdd:pfam18345    1 CKFFLKGRCRYGDKCRFAH 19
ZnF_C3H1 smart00356
zinc finger;
344-365 1.41e-03

zinc finger;


Pssm-ID: 214632 [Multi-domain]  Cd Length: 27  Bit Score: 37.22  E-value: 1.41e-03
                            10        20
                    ....*....|....*....|..
gi 161169020    344 VICKYFVEGRCTWGDHCNFSHD 365
Cdd:smart00356    5 ELCKFFKRGYCPRGDRCKFAHP 26
OmdA pfam13376
Bacteriocin-protection, YdeI or OmpD-Associated; This is a family of archaeal and bacterial ...
 724-749 3.57e-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: 3.57e-03
                           10        20
                   ....*....|....*....|....*.
gi 161169020   724 PSAQRALYLRIQQKQQEEERARRLAE 749
Cdd:pfam13376   27 PSYRREYLLWISSAKRPETRAKRIAK 52
PHA03247 PHA03247
large tegument protein UL36; Provisional
 683-1080 6.46e-03

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 41.08  E-value: 6.46e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 161169020  683 EELPGQPGEPLFPEHPLEP-DSFPEGGPPGRPKAGAGVPDFLPSAQRA----LYLRIQQKQQEEERARRLAESSKQDREN 757
Cdd:PHA03247 2586 ARRPDAPPQSARPRAPVDDrGDPRGPAPPSPLPPDTHAPDPPPPSPSPaanePDPHPPPTVPPPERPRDDPAPGRVSRPR 2665

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 161169020  758 EEGDTGNWYSSDEDEGGSSVTSILKTLRQQTSS-RPQASVGEPSSsglgdprlqKGHPTGSRLSDPRLSRDPRLSRHAET 836
Cdd:PHA03247 2666 RARRLGRAAQASSPPQRPRRRAARPTVGSLTSLaDPPPPPPTPEP---------APHALVSATPLPPGPAAARQASPALP 2736

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 161169020  837 SGGSGPGDSGPSDPRLARALPTSKAEGSLHSSPAGPSSSKGQPPAEEEEGerALREKAVNIPLDPLPGHPLRDPrsqlqq 916
Cdd:PHA03247 2737 AAPAPPAVPAGPATPGGPARPARPPTTAGPPAPAPPAAPAAGPPRRLTRP--AVASLSESRESLPSPWDPADPP------ 2808

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 161169020  917 fshikkdVTLSKPSFARTVLWNPEDLIPLPIPKQDVPPVPAALQSLPALdPRLHRSTPPGPPNTRQRPGSTDPSTSGSNL 996
Cdd:PHA03247 2809 -------AAVLAPAAALPPAASPAGPLPPPTSAQPTAPPPPPGPPPPSL-PLGGSVAPGGDVRRRPPSRSPAAKPAAPAR 2880

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 161169020  997 PDFELLSR----------ILKTVNVNTPGQSEKPSDPRVRKTPTDPRLQKPADPVAASRAAKPCPTEASPPAASPSGDSS 1066
Cdd:PHA03247 2881 PPVRRLARpavsrstesfALPPDQPERPPQPQAPPPPQPQPQPPPPPQPQPPPPPPPRPQPPLAPTTDPAGAGEPSGAVP 2960

                         410
                  ....*....|....
gi 161169020 1067 PPATAPYDPRVLAA 1080
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 ...
 344-365 1.54e-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: 1.54e-07
                           10        20
                   ....*....|....*....|..
gi 161169020   344 VICKYFVEGRCTWGDHCNFSHD 365
Cdd:pfam18044    1 RLCRYFQKGGCRYGDNCRFSHD 22
PHA03247 PHA03247
large tegument protein UL36; Provisional
 944-1230 2.16e-07

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 55.71  E-value: 2.16e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 161169020  944 PLPIPKQDVPPV-PAALQSLPALDPRLHR----------STPPGPPNTRQRPGSTDPSTSGSNLPDFELLSRILKTVNVN 1012
Cdd:PHA03247 2560 PPAAPDRSVPPPrPAPRPSEPAVTSRARRpdappqsarpRAPVDDRGDPRGPAPPSPLPPDTHAPDPPPPSPSPAANEPD 2639

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 161169020 1013 TPGQSEKPSDPRVRKTPTDPRLQKPADPVAASRAAKPC--PTEASPPAASP-------SGDSSPPATAPYDPRVLAAGGL 1083
Cdd:PHA03247 2640 PHPPPTVPPPERPRDDPAPGRVSRPRRARRLGRAAQASspPQRPRRRAARPtvgsltsLADPPPPPPTPEPAPHALVSAT 2719

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 161169020 1084 GQGSSSGQSSVLSGISLYDPRTPNAGGKTAEPASDTsAQPKGPEGNGKGSASKAKEPPFVRKSALEQPETGKASTDGATA 1163
Cdd:PHA03247 2720 PLPPGPAAARQASPALPAAPAPPAVPAGPATPGGPA-RPARPPTTAGPPAPAPPAAPAAGPPRRLTRPAVASLSESRESL 2798

                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 161169020 1164 TDRYNSYNRPRPKATAAPTAASSTPPPEGATPQPGVHNLPVPTLFGTVKPAPKTG----TGSPFAGNSPAR 1230
Cdd:PHA03247 2799 PSPWDPADPPAAVLAPAAALPPAASPAGPLPPPTSAQPTAPPPPPGPPPPSLPLGgsvaPGGDVRRRPPSR 2869
PHA03247 PHA03247
large tegument protein UL36; Provisional
 857-1215 3.23e-06

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 51.86  E-value: 3.23e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 161169020  857 PTSKAEGSLHSSPAGPSSSKGQPPAEEEEgERALREKAVNIPLDPLPGHPLRDPRSQlqqfshikkdvTLSKPSFARTVL 936
Cdd:PHA03247 2604 DRGDPRGPAPPSPLPPDTHAPDPPPPSPS-PAANEPDPHPPPTVPPPERPRDDPAPG-----------RVSRPRRARRLG 2671

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 161169020  937 WNPEDLIPLPIPKQdvPPVPAALQSLPAL-DPrlhrstPPGPPNTRQRPGSTDPSTSGSNLPDFELLSRILKTVNVNTPG 1015
Cdd:PHA03247 2672 RAAQASSPPQRPRR--RAARPTVGSLTSLaDP------PPPPPTPEPAPHALVSATPLPPGPAAARQASPALPAAPAPPA 2743

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 161169020 1016 QSEKPSDP-RVRKTPTDPRLQKPADPVAASRAAKPCPTEASPPAASPSGDSSPPATAPYDPRVLAAGGLGQGSSSGQSSV 1094
Cdd:PHA03247 2744 VPAGPATPgGPARPARPPTTAGPPAPAPPAAPAAGPPRRLTRPAVASLSESRESLPSPWDPADPPAAVLAPAAALPPAAS 2823

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 161169020 1095 lsgislydPRTPNAGGKTAEPASDTSAQPKGPEGNGKGsASKAKEPPFVRKSALEQPetgkASTDGATATDRYNSYNRPR 1174
Cdd:PHA03247 2824 --------PAGPLPPPTSAQPTAPPPPPGPPPPSLPLG-GSVAPGGDVRRRPPSRSP----AAKPAAPARPPVRRLARPA 2890

                         330       340       350       360
                  ....*....|....*....|....*....|....*....|.
gi 161169020 1175 PKATAAPTAASSTPPPEGATPQPGVHNLPVPTLFGTVKPAP 1215
Cdd:PHA03247 2891 VSRSTESFALPPDQPERPPQPQAPPPPQPQPQPPPPPQPQP 2931
zf_CCCH_4 pfam18345
Zinc finger domain; This is a zinc finger domain found in Zinc finger CCCH-type with G patch ...
 346-364 4.34e-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: 4.34e-06
                           10
                   ....*....|....*....
gi 161169020   346 CKYFVEGRCTWGDHCNFSH 364
Cdd:pfam18345    1 CKFFLKGRCRYGDKCRFAH 19
ZnF_C3H1 smart00356
zinc finger;
371-395 1.29e-05

zinc finger;


Pssm-ID: 214632 [Multi-domain]  Cd Length: 27  Bit Score: 43.00  E-value: 1.29e-05
                            10        20
                    ....*....|....*....|....*
gi 161169020    371 KRELCKFYITGFCARAENCPYMHGD 395
Cdd:smart00356    3 KTELCKFFKRGYCPRGDRCKFAHPL 27
PHA03378 PHA03378
EBNA-3B; Provisional
 967-1158 1.69e-05

EBNA-3B; Provisional


Pssm-ID: 223065 [Multi-domain]  Cd Length: 991  Bit Score: 49.30  E-value: 1.69e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 161169020  967 PRLHRSTPPGPPNTRQR-PGSTDPSTSGSNLPDFELLSRILKTVNVNTPGQSEKPSDPRVRKTPTDPRLQK----PADPV 1041
Cdd:PHA03378  598 PVPHPSQTPEPPTTQSHiPETSAPRQWPMPLRPIPMRPLRMQPITFNVLVFPTPHQPPQVEITPYKPTWTQighiPYQPS 677

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 161169020 1042 ----AASRAAKPCPTEASPPAASPsGDSSPPATAPYDPRVLAAGGLGQGSSSGQSSVLSGISLYDPRTPNAGGKTAEPAS 1117
Cdd:PHA03378  678 ptgaNTMLPIQWAPGTMQPPPRAP-TPMRPPAAPPGRAQRPAAATGRARPPAAAPGRARPPAAAPGRARPPAAAPGRARP 756

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|.
gi 161169020 1118 DTSAQPKGPEGNGKGSASKAKEPPFVRKSALEQPETGKAST 1158
Cdd:PHA03378  757 PAAAPGRARPPAAAPGAPTPQPPPQAPPAPQQRPRGAPTPQ 797
YTH1 COG5084
Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin ...
 335-417 6.28e-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: 46.40  E-value: 6.28e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 161169020  335 HQQSDKKGKVICKYFVEGRCTWGDHCNFSHDIELPKKREL-CKFY-ITGFCARAENCPYMHGDfPCKLY--------HTT 404
Cdd:COG5084    96 HVNPVLSSSVVCKFFLRGLCKSGFSCEFLHEYDLRSSQGPpCRSFsLKGSCSSGPSCGYSHID-PDSFAgncdqysgATY 174

                          90
                  ....*....|...
gi 161169020  405 GNCINGDDCMFSH 417
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 ...
 375-393 1.74e-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: 1.74e-04
                           10
                   ....*....|....*....
gi 161169020   375 CKFYITGFCARAENCPYMH 393
Cdd:pfam18345    1 CKFFLKGRCRYGDKCRFAH 19
PHA03307 PHA03307
transcriptional regulator ICP4; Provisional
 867-1228 1.85e-04

transcriptional regulator ICP4; Provisional


Pssm-ID: 223039 [Multi-domain]  Cd Length: 1352  Bit Score: 45.93  E-value: 1.85e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 161169020  867 SSPAGPSSSKGQPPAEEEEGERALREKAVNIPLDPLPGHPLRDPRSQlqqfshikKDVTLSKPSFARTVLWNPEDLIPLP 946
Cdd:PHA03307  106 PTPPGPSSPDPPPPTPPPASPPPSPAPDLSEMLRPVGSPGPPPAASP--------PAAGASPAAVASDAASSRQAALPLS 177

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 161169020  947 IPKQDVPPVPAALQSLPALDPRLHRSTPPGPPNTRQRPGSTDPSTSGSNLPDFELLSrilKTVNVNTPGQSEKPSDPRVR 1026
Cdd:PHA03307  178 SPEETARAPSSPPAEPPPSTPPAAASPRPPRRSSPISASASSPAPAPGRSAADDAGA---SSSDSSSSESSGCGWGPENE 254

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 161169020 1027 KTPTDPRLQKPADPVAASRAAKPCPTEASPPAASPSGDSSPPATAPYDPRVLAAgglgqgsssgqsSVLSGISLYDPRTP 1106
Cdd:PHA03307  255 CPLPRPAPITLPTRIWEASGWNGPSSRPGPASSSSSPRERSPSPSPSSPGSGPA------------PSSPRASSSSSSSR 322

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 161169020 1107 NAGGKTAEPASDTSAQPKGPEGNGKG-SASKAKEPPFVRKSALEQPETGKASTDGATATDRYNSYNRPRPKATAAPTAAS 1185
Cdd:PHA03307  323 ESSSSSTSSSSESSRGAAVSPGPSPSrSPSPSRPPPPADPSSPRKRPRPSRAPSSPAASAGRPTRRRARAAVAGRARRRD 402

                         330       340       350       360
                  ....*....|....*....|....*....|....*....|...
gi 161169020 1186 STPPPEGATPQPGVHNLPVPTLFGTVKPAPKTGTGSPFAGNSP 1228
Cdd:PHA03307  403 ATGRFPAGRPRPSPLDAGAASGAFYARYPLLTPSGEPWPGSPP 445
PRK12323 PRK12323
DNA polymerase III subunit gamma/tau;
1014-1229 2.87e-04

DNA polymerase III subunit gamma/tau;


Pssm-ID: 237057 [Multi-domain]  Cd Length: 700  Bit Score: 45.25  E-value: 2.87e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 161169020 1014 PGQSEKPSDPRVRKTPTD----PRLQKPADPVAASRAAKPCPTEASPPAASPSGDSSPPATAPYDPRVLAAGGLGQGSSS 1089
Cdd:PRK12323  365 PGQSGGGAGPATAAAAPVaqpaPAAAAPAAAAPAPAAPPAAPAAAPAAAAAARAVAAAPARRSPAPEALAAARQASARGP 444

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 161169020 1090 GQSSVLSGISLYDP----RTPNAGgktAEPASDTSAQPKGPEGNGKGSASKAKEPPFVRKSALEQPETGKASTDGATATD 1165
Cdd:PRK12323  445 GGAPAPAPAPAAAPaaaaRPAAAG---PRPVAAAAAAAPARAAPAAAPAPADDDPPPWEELPPEFASPAPAQPDAAPAGW 521

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 161169020 1166 RYNSYNRPRPKATAAPTAASSTPPPEGATPQPGVHNLPVPTlfGTVKPAPKTGTGSPFAGNSPA 1229
Cdd:PRK12323  522 VAESIPDPATADPDDAFETLAPAPAAAPAPRAAAATEPVVA--PRPPRASASGLPDMFDGDWPA 583
zf-CCCH pfam00642
Zinc finger C-x8-C-x5-C-x3-H type (and similar);
370-395 3.53e-04

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


Pssm-ID: 459885 [Multi-domain]  Cd Length: 27  Bit Score: 38.71  E-value: 3.53e-04
                           10        20
                   ....*....|....*....|....*..
gi 161169020   370 KKRELCKFY-ITGFCARAENCPYMHGD 395
Cdd:pfam00642    1 YKTELCRFFlRTGYCKYGDRCKFAHGQ 27
PRK14951 PRK14951
DNA polymerase III subunits gamma and tau; Provisional
 1014-1140 7.46e-04

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 237865 [Multi-domain]  Cd Length: 618  Bit Score: 43.93  E-value: 7.46e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 161169020 1014 PGQSEKPSDPRVRKTPTDPRLQKPA-----DPVAASRAAKPCPTEASPPAASPSGDSSPPATAPydprVLAAGGLGQGSS 1088
Cdd:PRK14951  366 PAAAAEAAAPAEKKTPARPEAAAPAaapvaQAAAAPAPAAAPAAAASAPAAPPAAAPPAPVAAP----AAAAPAAAPAAA 441

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|..
gi 161169020 1089 SGQSSVLSGISLYDPRTPNAGGKTAEPASDTSAQPKGPEGNGKGSASKAKEP 1140
Cdd:PRK14951  442 PAAVALAPAPPAQAAPETVAIPVRVAPEPAVASAAPAPAAAPAAARLTPTEE 493
ZnF_C3H1 smart00356
zinc finger;
344-365 1.41e-03

zinc finger;


Pssm-ID: 214632 [Multi-domain]  Cd Length: 27  Bit Score: 37.22  E-value: 1.41e-03
                            10        20
                    ....*....|....*....|..
gi 161169020    344 VICKYFVEGRCTWGDHCNFSHD 365
Cdd:smart00356    5 ELCKFFKRGYCPRGDRCKFAHP 26
OmdA pfam13376
Bacteriocin-protection, YdeI or OmpD-Associated; This is a family of archaeal and bacterial ...
 724-749 3.57e-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: 3.57e-03
                           10        20
                   ....*....|....*....|....*.
gi 161169020   724 PSAQRALYLRIQQKQQEEERARRLAE 749
Cdd:pfam13376   27 PSYRREYLLWISSAKRPETRAKRIAK 52
PRK07003 PRK07003
DNA polymerase III subunit gamma/tau;
946-1238 4.61e-03

DNA polymerase III subunit gamma/tau;


Pssm-ID: 235906 [Multi-domain]  Cd Length: 830  Bit Score: 41.37  E-value: 4.61e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 161169020  946 PIPKQDVPPVPAALQSLPALDPRLHRSTPPGPPNTRQRPGSTDPSTSGSNLPdfellsrilkTVNVNTPGQSekpSDPRV 1025
Cdd:PRK07003  374 ARVAGAVPAPGARAAAAVGASAVPAVTAVTGAAGAALAPKAAAAAAATRAEA----------PPAAPAPPAT---ADRGD 440

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 161169020 1026 RKTPTDPRLQKPADpvAASRAAKPCPTEASPPAASPSGDSSPPATAPYDPRVLAAGGLGQGSSSGQssvlsgislydPRT 1105
Cdd:PRK07003  441 DAADGDAPVPAKAN--ARASADSRCDERDAQPPADSGSASAPASDAPPDAAFEPAPRAAAPSAATP-----------AAV 507

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 161169020 1106 PNAGGKTAEPASDTSAQPKGPEGNGKGSASKAKEPPFVRKSAleqpetgKASTDGATATDRYNSYNRPRPKATAAPTAAS 1185
Cdd:PRK07003  508 PDARAPAAASREDAPAAAAPPAPEARPPTPAAAAPAARAGGA-------AAALDVLRNAGMRVSSDRGARAAAAAKPAAA 580

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|...
gi 161169020 1186 STPPPEGATPQPGVhnlPVPTLfgtvkPAPKTGTGSPFAGNSPAREGEQDAGS 1238
Cdd:PRK07003  581 PAAAPKPAAPRVAV---QVPTP-----RARAATGDAPPNGAARAEQAAESRGA 625
PHA03269 PHA03269
envelope glycoprotein C; Provisional
 944-1070 4.83e-03

envelope glycoprotein C; Provisional


Pssm-ID: 165527 [Multi-domain]  Cd Length: 566  Bit Score: 41.25  E-value: 4.83e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 161169020  944 PLPIPKQDVPPVPAALQSLPALDPRLHRSTPPGPpntrqrpgSTDPSTSGSNLPDFELlsrilktvnVNTPGQSEKPsDP 1023
Cdd:PHA03269   23 NTNIPIPELHTSAATQKPDPAPAPHQAASRAPDP--------AVAPTSAASRKPDLAQ---------APTPAASEKF-DP 84

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*..
gi 161169020 1024 RVRktPTDPRLQKPADPVAASRAAKPCPTEASPPAASPSGDSSPPAT 1070
Cdd:PHA03269   85 APA--PHQAASRAPDPAVAPQLAAAPKPDAAEAFTSAAQAHEAPADA 129
PHA03247 PHA03247
large tegument protein UL36; Provisional
 683-1080 6.46e-03

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 41.08  E-value: 6.46e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 161169020  683 EELPGQPGEPLFPEHPLEP-DSFPEGGPPGRPKAGAGVPDFLPSAQRA----LYLRIQQKQQEEERARRLAESSKQDREN 757
Cdd:PHA03247 2586 ARRPDAPPQSARPRAPVDDrGDPRGPAPPSPLPPDTHAPDPPPPSPSPaanePDPHPPPTVPPPERPRDDPAPGRVSRPR 2665

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 161169020  758 EEGDTGNWYSSDEDEGGSSVTSILKTLRQQTSS-RPQASVGEPSSsglgdprlqKGHPTGSRLSDPRLSRDPRLSRHAET 836
Cdd:PHA03247 2666 RARRLGRAAQASSPPQRPRRRAARPTVGSLTSLaDPPPPPPTPEP---------APHALVSATPLPPGPAAARQASPALP 2736

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 161169020  837 SGGSGPGDSGPSDPRLARALPTSKAEGSLHSSPAGPSSSKGQPPAEEEEGerALREKAVNIPLDPLPGHPLRDPrsqlqq 916
Cdd:PHA03247 2737 AAPAPPAVPAGPATPGGPARPARPPTTAGPPAPAPPAAPAAGPPRRLTRP--AVASLSESRESLPSPWDPADPP------ 2808

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 161169020  917 fshikkdVTLSKPSFARTVLWNPEDLIPLPIPKQDVPPVPAALQSLPALdPRLHRSTPPGPPNTRQRPGSTDPSTSGSNL 996
Cdd:PHA03247 2809 -------AAVLAPAAALPPAASPAGPLPPPTSAQPTAPPPPPGPPPPSL-PLGGSVAPGGDVRRRPPSRSPAAKPAAPAR 2880

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 161169020  997 PDFELLSR----------ILKTVNVNTPGQSEKPSDPRVRKTPTDPRLQKPADPVAASRAAKPCPTEASPPAASPSGDSS 1066
Cdd:PHA03247 2881 PPVRRLARpavsrstesfALPPDQPERPPQPQAPPPPQPQPQPPPPPQPQPPPPPPPRPQPPLAPTTDPAGAGEPSGAVP 2960

                         410
                  ....*....|....
gi 161169020 1067 PPATAPYDPRVLAA 1080
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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