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Conserved domains on  [gi|1958697724|ref|XP_038951236|]
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zinc finger protein 40 isoform X1 [Rattus norvegicus]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PHA03247 super family cl33720
large tegument protein UL36; Provisional
 2273-2663 3.32e-09

large tegument protein UL36; Provisional


The actual alignment was detected with superfamily member PHA03247:

Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 63.03  E-value: 3.32e-09
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958697724 2273 APPVDTPISPEVTPRSPGHQMSVHYSESDALRSPAAGNTVASIQDSPSVGLPPATIAQLN-------PQPAARISSSVSP 2345
Cdd:PHA03247  2622 HAPDPPPPSPSPAANEPDPHPPPTVPPPERPRDDPAPGRVSRPRRARRLGRAAQASSPPQrprrraaRPTVGSLTSLADP 2701

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958697724 2346 HPESQEPkqqitlQPSPGLPSPQTHLFSHLPLHSQQQSRTPYNMVP--VGGIHVVPAGLTYSTFVPIQAGPMQLTIPAVS 2423
Cdd:PHA03247  2702 PPPPPTP------EPAPHALVSATPLPPGPAAARQASPALPAAPAPpaVPAGPATPGGPARPARPPTTAGPPAPAPPAAP 2775

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958697724 2424 VihrtvGTPVDTITEVSGATNRPTGVAELSSVVPCIPIGQIHVPglqNLSPPALQSLSSLGMETVNIVGLANATVGPQVh 2503
Cdd:PHA03247  2776 A-----AGPPRRLTRPAVASLSESRESLPSPWDPADPPAAVLAP---AAALPPAASPAGPLPPPTSAQPTAPPPPPGPP- 2846

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958697724 2504 PPGLALN---AVGLQVLANAPAQSSPATQTHIPGLQILNIALPTLIPSVGPVAVGTAG-----TPETATSNSKTVEPQTP 2575
Cdd:PHA03247  2847 PPSLPLGgsvAPGGDVRRRPPSRSPAAKPAAPARPPVRRLARPAVSRSTESFALPPDQperppQPQAPPPPQPQPQPPPP 2926

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958697724 2576 AGQGHSAEPPQRLPEGPQETPQTVPGPSVDHARPDgsskmdtkkvASASHVLPGRSSAQAQPAPIPEALQKIVASgPTSL 2655
Cdd:PHA03247  2927 PQPQPPPPPPPRPQPPLAPTTDPAGAGEPSGAVPQ----------PWLGALVPGRVAVPRFRVPQPAPSREAPAS-STPP 2995


                   ....*...
gi 1958697724 2656 PTDRPAPR 2663
Cdd:PHA03247  2996 LTGHSLSR 3003
zf-H2C2_2 pfam13465
Zinc-finger double domain;
2087-2112 6.30e-06

Zinc-finger double domain;


:

Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 44.67  E-value: 6.30e-06
                           10        20
                   ....*....|....*....|....*.
gi 1958697724 2087 MLKKHIRTHTDVRPYHCTYCNFSFKT 2112
Cdd:pfam13465    1 NLKRHMRTHTGEKPYKCPECGKSFKS 26
zf-H2C2_2 pfam13465
Zinc-finger double domain;
422-446 6.30e-05

Zinc-finger double domain;


:

Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 41.97  E-value: 6.30e-05
                           10        20
                   ....*....|....*....|....*
gi 1958697724  422 LLKHIRSHTGERPYPCVTCGFSFKT 446
Cdd:pfam13465    2 LKRHMRTHTGEKPYKCPECGKSFKS 26
zf-C2H2 pfam00096
Zinc finger, C2H2 type; The C2H2 zinc finger is the classical zinc finger domain. The two ...
 2073-2095 1.66e-04

Zinc finger, C2H2 type; The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger. #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C] Where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter.


:

Pssm-ID: 395048 [Multi-domain]  Cd Length: 23  Bit Score: 40.75  E-value: 1.66e-04
                           10        20
                   ....*....|....*....|...
gi 1958697724 2073 YICEECGIRCKKPSMLKKHIRTH 2095
Cdd:pfam00096    1 YKCPDCGKSFSRKSNLKRHLRTH 23
ZnF_U1 smart00451
U1-like zinc finger; Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ...
 2098-2129 6.79e-03

U1-like zinc finger; Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.


:

Pssm-ID: 197732 [Multi-domain]  Cd Length: 35  Bit Score: 36.46  E-value: 6.79e-03
                            10        20        30
                    ....*....|....*....|....*....|..
gi 1958697724  2098 VRPYHCTYCNFSFKTKGNLTKHMKSKAHSKKC 2129
Cdd:smart00451    1 TGGFYCKLCNVTFTDEISVEAHLKGKKHKKNV 32
 
Name Accession Description Interval E-value
PHA03247 PHA03247
large tegument protein UL36; Provisional
 2273-2663 3.32e-09

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 63.03  E-value: 3.32e-09
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958697724 2273 APPVDTPISPEVTPRSPGHQMSVHYSESDALRSPAAGNTVASIQDSPSVGLPPATIAQLN-------PQPAARISSSVSP 2345
Cdd:PHA03247  2622 HAPDPPPPSPSPAANEPDPHPPPTVPPPERPRDDPAPGRVSRPRRARRLGRAAQASSPPQrprrraaRPTVGSLTSLADP 2701

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958697724 2346 HPESQEPkqqitlQPSPGLPSPQTHLFSHLPLHSQQQSRTPYNMVP--VGGIHVVPAGLTYSTFVPIQAGPMQLTIPAVS 2423
Cdd:PHA03247  2702 PPPPPTP------EPAPHALVSATPLPPGPAAARQASPALPAAPAPpaVPAGPATPGGPARPARPPTTAGPPAPAPPAAP 2775

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958697724 2424 VihrtvGTPVDTITEVSGATNRPTGVAELSSVVPCIPIGQIHVPglqNLSPPALQSLSSLGMETVNIVGLANATVGPQVh 2503
Cdd:PHA03247  2776 A-----AGPPRRLTRPAVASLSESRESLPSPWDPADPPAAVLAP---AAALPPAASPAGPLPPPTSAQPTAPPPPPGPP- 2846

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958697724 2504 PPGLALN---AVGLQVLANAPAQSSPATQTHIPGLQILNIALPTLIPSVGPVAVGTAG-----TPETATSNSKTVEPQTP 2575
Cdd:PHA03247  2847 PPSLPLGgsvAPGGDVRRRPPSRSPAAKPAAPARPPVRRLARPAVSRSTESFALPPDQperppQPQAPPPPQPQPQPPPP 2926

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958697724 2576 AGQGHSAEPPQRLPEGPQETPQTVPGPSVDHARPDgsskmdtkkvASASHVLPGRSSAQAQPAPIPEALQKIVASgPTSL 2655
Cdd:PHA03247  2927 PQPQPPPPPPPRPQPPLAPTTDPAGAGEPSGAVPQ----------PWLGALVPGRVAVPRFRVPQPAPSREAPAS-STPP 2995


                   ....*...
gi 1958697724 2656 PTDRPAPR 2663
Cdd:PHA03247  2996 LTGHSLSR 3003
zf-H2C2_2 pfam13465
Zinc-finger double domain;
2087-2112 6.30e-06

Zinc-finger double domain;


Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 44.67  E-value: 6.30e-06
                           10        20
                   ....*....|....*....|....*.
gi 1958697724 2087 MLKKHIRTHTDVRPYHCTYCNFSFKT 2112
Cdd:pfam13465    1 NLKRHMRTHTGEKPYKCPECGKSFKS 26
zf-H2C2_2 pfam13465
Zinc-finger double domain;
422-446 6.30e-05

Zinc-finger double domain;


Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 41.97  E-value: 6.30e-05
                           10        20
                   ....*....|....*....|....*
gi 1958697724  422 LLKHIRSHTGERPYPCVTCGFSFKT 446
Cdd:pfam13465    2 LKRHMRTHTGEKPYKCPECGKSFKS 26
zf-C2H2 pfam00096
Zinc finger, C2H2 type; The C2H2 zinc finger is the classical zinc finger domain. The two ...
 2073-2095 1.66e-04

Zinc finger, C2H2 type; The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger. #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C] Where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter.


Pssm-ID: 395048 [Multi-domain]  Cd Length: 23  Bit Score: 40.75  E-value: 1.66e-04
                           10        20
                   ....*....|....*....|...
gi 1958697724 2073 YICEECGIRCKKPSMLKKHIRTH 2095
Cdd:pfam00096    1 YKCPDCGKSFSRKSNLKRHLRTH 23
ZnF_C2H2 smart00355
zinc finger;
2101-2122 1.83e-03

zinc finger;


Pssm-ID: 197676  Cd Length: 23  Bit Score: 37.83  E-value: 1.83e-03
                            10        20
                    ....*....|....*....|..
gi 1958697724  2101 YHCTYCNFSFKTKGNLTKHMKS 2122
Cdd:smart00355    1 YRCPECGKVFKSKSALREHMRT 22
DUF5585 pfam17823
Family of unknown function (DUF5585); This is a family of unknown function found in chordata.
 2300-2637 1.86e-03

Family of unknown function (DUF5585); This is a family of unknown function found in chordata.


Pssm-ID: 465521 [Multi-domain]  Cd Length: 506  Bit Score: 43.41  E-value: 1.86e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958697724 2300 SDALRSPAAGNTVASIQDSPSVGLPPATIAQLNPQPAA-RISSSVSPHPESQEPKQQITLQPSPGLPSPQTHLFSHLPLH 2378
Cdd:pfam17823  112 SRALAAAASSSPSSAAQSLPAAIAALPSEAFSAPRAAAcRANASAAPRAAIAAASAPHAASPAPRTAASSTTAASSTTAA 191

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958697724 2379 SQQQ----SRTPYNMVPVGGIHVVPAGltysTFVPiQAGPMQLTIPAVSVIHRTVGTPVDTITevsgatnrPTGVAELSS 2454
Cdd:pfam17823  192 SSAPttaaSSAPATLTPARGISTAATA----TGHP-AAGTALAAVGNSSPAAGTVTAAVGTVT--------PAALATLAA 258

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958697724 2455 VVPCIPigqiHVPGLQNLSPPALQSLS-SLGMETVNIVGLANATVGPQVHPPGLalnavglQVLANAPAQSSPATQTHIP 2533
Cdd:pfam17823  259 AAGTVA----SAAGTINMGDPHARRLSpAKHMPSDTMARNPAAPMGAQAQGPII-------QVSTDQPVHNTAGEPTPSP 327

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958697724 2534 GLQILNIALPTLIPSVGPVAVGTAgtpetatsnskTVEPQTPAGQGHSAEPPQRLPEGPQETPQTVPGPSVDHARPDGSS 2613
Cdd:pfam17823  328 SNTTLEPNTPKSVASTNLAVVTTT-----------KAQAKEPSASPVPVLHTSMIPEVEATSPTTQPSPLLPTQGAAGPG 396

                          330       340
                   ....*....|....*....|....
gi 1958697724 2614 KMDTKKVAsASHVLPGRSSAQAQP 2637
Cdd:pfam17823  397 ILLAPEQV-ATEATAGTASAGPTP 419
ZnF_C2H2 smart00355
zinc finger;
435-457 5.35e-03

zinc finger;


Pssm-ID: 197676  Cd Length: 23  Bit Score: 36.29  E-value: 5.35e-03
                            10        20
                    ....*....|....*....|...
gi 1958697724   435 YPCVTCGFSFKTKSNLYKHKKSH 457
Cdd:smart00355    1 YRCPECGKVFKSKSALREHMRTH 23
ZnF_U1 smart00451
U1-like zinc finger; Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ...
 2098-2129 6.79e-03

U1-like zinc finger; Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.


Pssm-ID: 197732 [Multi-domain]  Cd Length: 35  Bit Score: 36.46  E-value: 6.79e-03
                            10        20        30
                    ....*....|....*....|....*....|..
gi 1958697724  2098 VRPYHCTYCNFSFKTKGNLTKHMKSKAHSKKC 2129
Cdd:smart00451    1 TGGFYCKLCNVTFTDEISVEAHLKGKKHKKNV 32
ZnF_C2H2 smart00355
zinc finger;
2073-2095 7.25e-03

zinc finger;


Pssm-ID: 197676  Cd Length: 23  Bit Score: 35.90  E-value: 7.25e-03
                            10        20
                    ....*....|....*....|...
gi 1958697724  2073 YICEECGIRCKKPSMLKKHIRTH 2095
Cdd:smart00355    1 YRCPECGKVFKSKSALREHMRTH 23
 
Name Accession Description Interval E-value
PHA03247 PHA03247
large tegument protein UL36; Provisional
 2273-2663 3.32e-09

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 63.03  E-value: 3.32e-09
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958697724 2273 APPVDTPISPEVTPRSPGHQMSVHYSESDALRSPAAGNTVASIQDSPSVGLPPATIAQLN-------PQPAARISSSVSP 2345
Cdd:PHA03247  2622 HAPDPPPPSPSPAANEPDPHPPPTVPPPERPRDDPAPGRVSRPRRARRLGRAAQASSPPQrprrraaRPTVGSLTSLADP 2701

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958697724 2346 HPESQEPkqqitlQPSPGLPSPQTHLFSHLPLHSQQQSRTPYNMVP--VGGIHVVPAGLTYSTFVPIQAGPMQLTIPAVS 2423
Cdd:PHA03247  2702 PPPPPTP------EPAPHALVSATPLPPGPAAARQASPALPAAPAPpaVPAGPATPGGPARPARPPTTAGPPAPAPPAAP 2775

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958697724 2424 VihrtvGTPVDTITEVSGATNRPTGVAELSSVVPCIPIGQIHVPglqNLSPPALQSLSSLGMETVNIVGLANATVGPQVh 2503
Cdd:PHA03247  2776 A-----AGPPRRLTRPAVASLSESRESLPSPWDPADPPAAVLAP---AAALPPAASPAGPLPPPTSAQPTAPPPPPGPP- 2846

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958697724 2504 PPGLALN---AVGLQVLANAPAQSSPATQTHIPGLQILNIALPTLIPSVGPVAVGTAG-----TPETATSNSKTVEPQTP 2575
Cdd:PHA03247  2847 PPSLPLGgsvAPGGDVRRRPPSRSPAAKPAAPARPPVRRLARPAVSRSTESFALPPDQperppQPQAPPPPQPQPQPPPP 2926

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958697724 2576 AGQGHSAEPPQRLPEGPQETPQTVPGPSVDHARPDgsskmdtkkvASASHVLPGRSSAQAQPAPIPEALQKIVASgPTSL 2655
Cdd:PHA03247  2927 PQPQPPPPPPPRPQPPLAPTTDPAGAGEPSGAVPQ----------PWLGALVPGRVAVPRFRVPQPAPSREAPAS-STPP 2995


                   ....*...
gi 1958697724 2656 PTDRPAPR 2663
Cdd:PHA03247  2996 LTGHSLSR 3003
PHA03247 PHA03247
large tegument protein UL36; Provisional
 2272-2667 1.17e-07

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 58.03  E-value: 1.17e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958697724 2272 LAPPVDTPIS---PEVTPRSPGHQMSVHYSESDALRSPAAGNTVASIQDSP-----SVGLPPATIAQLNP--QPAARISS 2341
Cdd:PHA03247  2558 AAPPAAPDRSvppPRPAPRPSEPAVTSRARRPDAPPQSARPRAPVDDRGDPrgpapPSPLPPDTHAPDPPppSPSPAANE 2637

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958697724 2342 SVSPHPESQEPKQQITLQPSPGLPSPqthlfshlPLHSQQQSRTPYNMVPVGGIHVVPAGLTYSTFVPIQAGPMQLTIPA 2421
Cdd:PHA03247  2638 PDPHPPPTVPPPERPRDDPAPGRVSR--------PRRARRLGRAAQASSPPQRPRRRAARPTVGSLTSLADPPPPPPTPE 2709

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958697724 2422 VSVIHRTVGTPVDTITEVSGATNRPTGVAELSSVVPCIPIgqihVPGLQN--LSPPALQSLSSLGMETVNIVGLANATVG 2499
Cdd:PHA03247  2710 PAPHALVSATPLPPGPAAARQASPALPAAPAPPAVPAGPA----TPGGPArpARPPTTAGPPAPAPPAAPAAGPPRRLTR 2785

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958697724 2500 PQVHPPGLALNAvglqvlanAPAQSSPATqtHIPGLQILNIALPTLIPSVGPVAVGTAGTPETATSNSKTVEPQTPAGQG 2579
Cdd:PHA03247  2786 PAVASLSESRES--------LPSPWDPAD--PPAAVLAPAAALPPAASPAGPLPPPTSAQPTAPPPPPGPPPPSLPLGGS 2855

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958697724 2580 ------HSAEPPQRLPEGPQETPQTVPGPSVdhARPDGSSKMDTKKVASASHVLPGRSSAQAQPAPIPEALQKivasgPT 2653
Cdd:PHA03247  2856 vapggdVRRRPPSRSPAAKPAAPARPPVRRL--ARPAVSRSTESFALPPDQPERPPQPQAPPPPQPQPQPPPP-----PQ 2928

                          410
                   ....*....|....
gi 1958697724 2654 SLPTDRPAPRPPVP 2667
Cdd:PHA03247  2929 PQPPPPPPPRPQPP 2942
zf-H2C2_2 pfam13465
Zinc-finger double domain;
2087-2112 6.30e-06

Zinc-finger double domain;


Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 44.67  E-value: 6.30e-06
                           10        20
                   ....*....|....*....|....*.
gi 1958697724 2087 MLKKHIRTHTDVRPYHCTYCNFSFKT 2112
Cdd:pfam13465    1 NLKRHMRTHTGEKPYKCPECGKSFKS 26
zf-H2C2_2 pfam13465
Zinc-finger double domain;
422-446 6.30e-05

Zinc-finger double domain;


Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 41.97  E-value: 6.30e-05
                           10        20
                   ....*....|....*....|....*
gi 1958697724  422 LLKHIRSHTGERPYPCVTCGFSFKT 446
Cdd:pfam13465    2 LKRHMRTHTGEKPYKCPECGKSFKS 26
zf-C2H2 pfam00096
Zinc finger, C2H2 type; The C2H2 zinc finger is the classical zinc finger domain. The two ...
 2073-2095 1.66e-04

Zinc finger, C2H2 type; The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger. #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C] Where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter.


Pssm-ID: 395048 [Multi-domain]  Cd Length: 23  Bit Score: 40.75  E-value: 1.66e-04
                           10        20
                   ....*....|....*....|...
gi 1958697724 2073 YICEECGIRCKKPSMLKKHIRTH 2095
Cdd:pfam00096    1 YKCPDCGKSFSRKSNLKRHLRTH 23
PRK07764 PRK07764
DNA polymerase III subunits gamma and tau; Validated
 2290-2671 4.06e-04

DNA polymerase III subunits gamma and tau; Validated


Pssm-ID: 236090 [Multi-domain]  Cd Length: 824  Bit Score: 46.13  E-value: 4.06e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958697724 2290 GHQMSVHYSESDALRSPAAGnTVASIQDSPSvglPPATIAQLNPQPAARISSSVSPHPESQEPKQQITLQPSPGLPSPQT 2369
Cdd:PRK07764   384 RLGVAGGAGAPAAAAPSAAA-AAPAAAPAPA---AAAPAAAAAPAPAAAPQPAPAPAPAPAPPSPAGNAPAGGAPSPPPA 459

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958697724 2370 HLFSHLPlHSQQQSRTPYNMVPVGGIHVVPAGltystfVPIQAGPMQLTIPAVSVIHRTVGTPVDTITEVSGATNRPTGV 2449
Cdd:PRK07764   460 AAPSAQP-APAPAAAPEPTAAPAPAPPAAPAP------AAAPAAPAAPAAPAGADDAATLRERWPEILAAVPKRSRKTWA 532

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958697724 2450 AELSSVVPCIPIGQIHVpgLQNLSPPALQSLSSLGMETV------NIVGL---ANATVGPQVHPPGLAlNAVGLQVLANA 2520
Cdd:PRK07764   533 ILLPEATVLGVRGDTLV--LGFSTGGLARRFASPGNAEVlvtalaEELGGdwqVEAVVGPAPGAAGGE-GPPAPASSGPP 609

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958697724 2521 PAQSSPATQTHIPGlqilnialptlipSVGPVAVGTAGTPETATSNSKTVEPQTPAGQGHSAEPPQRLPEGPQETPQTVP 2600
Cdd:PRK07764   610 EEAARPAAPAAPAA-------------PAAPAPAGAAAAPAEASAAPAPGVAAPEHHPKHVAVPDASDGGDGWPAKAGGA 676

                          330       340       350       360       370       380       390
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1958697724 2601 GPSVDHARP-DGSSKMDTKKVASASHV-LPGRSSAQAQPAPIPEALQKIVASGPTSLPTDRPAPRPPVPHRQP 2671
Cdd:PRK07764   677 APAAPPPAPaPAAPAAPAGAAPAQPAPaPAATPPAGQADDPAAQPPQAAQGASAPSPAADDPVPLPPEPDDPP 749
zf-C2H2 pfam00096
Zinc finger, C2H2 type; The C2H2 zinc finger is the classical zinc finger domain. The two ...
 2101-2122 4.92e-04

Zinc finger, C2H2 type; The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger. #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C] Where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter.


Pssm-ID: 395048 [Multi-domain]  Cd Length: 23  Bit Score: 39.21  E-value: 4.92e-04
                           10        20
                   ....*....|....*....|..
gi 1958697724 2101 YHCTYCNFSFKTKGNLTKHMKS 2122
Cdd:pfam00096    1 YKCPDCGKSFSRKSNLKRHLRT 22
PRK07764 PRK07764
DNA polymerase III subunits gamma and tau; Validated
 2304-2671 5.37e-04

DNA polymerase III subunits gamma and tau; Validated


Pssm-ID: 236090 [Multi-domain]  Cd Length: 824  Bit Score: 45.75  E-value: 5.37e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958697724 2304 RSPAAGNTVASIQDSPSVGLPPATIAQLNPQPAARISSSVSPHPESQEPKQQITLQPSPGLPSPQTHLFSHLPLHSQQQS 2383
Cdd:PRK07764   384 RLGVAGGAGAPAAAAPSAAAAAPAAAPAPAAAAPAAAAAPAPAAAPQPAPAPAPAPAPPSPAGNAPAGGAPSPPPAAAPS 463

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958697724 2384 RTPynmVPVGGIHVVPAGLTYSTFVPIQAG------PMQLTIPAVSVIHRTVGTPVDTITEVSGATNRPTGVAELSSVVP 2457
Cdd:PRK07764   464 AQP---APAPAAAPEPTAAPAPAPPAAPAPaaapaaPAAPAAPAGADDAATLRERWPEILAAVPKRSRKTWAILLPEATV 540

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958697724 2458 CIPIGQIHVpgLQNLSPPALQSLSSLGMETV------NIVGL---ANATVGPQVHPPGLALNAVGLQVL----------- 2517
Cdd:PRK07764   541 LGVRGDTLV--LGFSTGGLARRFASPGNAEVlvtalaEELGGdwqVEAVVGPAPGAAGGEGPPAPASSGppeeaarpaap 618

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958697724 2518 --ANAPAQSSPATQTHIPGLQILNIALPTLIPSVGPVAVGTAGTPETATSNSKTVEPQTPAGQGHSAEPPQRLPEGPQET 2595
Cdd:PRK07764   619 aaPAAPAAPAPAGAAAAPAEASAAPAPGVAAPEHHPKHVAVPDASDGGDGWPAKAGGAAPAAPPPAPAPAAPAAPAGAAP 698

                          330       340       350       360       370       380       390
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1958697724 2596 PQTVPGPS-VDHARPDGSSKMDTKKVASASHVLPGRSSAQAQPAPIPEALQKIVASGPTSLPTDRPAPRPPVPHRQP 2671
Cdd:PRK07764   699 AQPAPAPAaTPPAGQADDPAAQPPQAAQGASAPSPAADDPVPLPPEPDDPPDPAGAPAQPPPPPAPAPAAAPAAAPP 775
ZnF_C2H2 smart00355
zinc finger;
2101-2122 1.83e-03

zinc finger;


Pssm-ID: 197676  Cd Length: 23  Bit Score: 37.83  E-value: 1.83e-03
                            10        20
                    ....*....|....*....|..
gi 1958697724  2101 YHCTYCNFSFKTKGNLTKHMKS 2122
Cdd:smart00355    1 YRCPECGKVFKSKSALREHMRT 22
DUF5585 pfam17823
Family of unknown function (DUF5585); This is a family of unknown function found in chordata.
 2300-2637 1.86e-03

Family of unknown function (DUF5585); This is a family of unknown function found in chordata.


Pssm-ID: 465521 [Multi-domain]  Cd Length: 506  Bit Score: 43.41  E-value: 1.86e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958697724 2300 SDALRSPAAGNTVASIQDSPSVGLPPATIAQLNPQPAA-RISSSVSPHPESQEPKQQITLQPSPGLPSPQTHLFSHLPLH 2378
Cdd:pfam17823  112 SRALAAAASSSPSSAAQSLPAAIAALPSEAFSAPRAAAcRANASAAPRAAIAAASAPHAASPAPRTAASSTTAASSTTAA 191

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958697724 2379 SQQQ----SRTPYNMVPVGGIHVVPAGltysTFVPiQAGPMQLTIPAVSVIHRTVGTPVDTITevsgatnrPTGVAELSS 2454
Cdd:pfam17823  192 SSAPttaaSSAPATLTPARGISTAATA----TGHP-AAGTALAAVGNSSPAAGTVTAAVGTVT--------PAALATLAA 258

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958697724 2455 VVPCIPigqiHVPGLQNLSPPALQSLS-SLGMETVNIVGLANATVGPQVHPPGLalnavglQVLANAPAQSSPATQTHIP 2533
Cdd:pfam17823  259 AAGTVA----SAAGTINMGDPHARRLSpAKHMPSDTMARNPAAPMGAQAQGPII-------QVSTDQPVHNTAGEPTPSP 327

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958697724 2534 GLQILNIALPTLIPSVGPVAVGTAgtpetatsnskTVEPQTPAGQGHSAEPPQRLPEGPQETPQTVPGPSVDHARPDGSS 2613
Cdd:pfam17823  328 SNTTLEPNTPKSVASTNLAVVTTT-----------KAQAKEPSASPVPVLHTSMIPEVEATSPTTQPSPLLPTQGAAGPG 396

                          330       340
                   ....*....|....*....|....
gi 1958697724 2614 KMDTKKVAsASHVLPGRSSAQAQP 2637
Cdd:pfam17823  397 ILLAPEQV-ATEATAGTASAGPTP 419
ZnF_C2H2 smart00355
zinc finger;
435-457 5.35e-03

zinc finger;


Pssm-ID: 197676  Cd Length: 23  Bit Score: 36.29  E-value: 5.35e-03
                            10        20
                    ....*....|....*....|...
gi 1958697724   435 YPCVTCGFSFKTKSNLYKHKKSH 457
Cdd:smart00355    1 YRCPECGKVFKSKSALREHMRTH 23
ZnF_U1 smart00451
U1-like zinc finger; Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ...
 2098-2129 6.79e-03

U1-like zinc finger; Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.


Pssm-ID: 197732 [Multi-domain]  Cd Length: 35  Bit Score: 36.46  E-value: 6.79e-03
                            10        20        30
                    ....*....|....*....|....*....|..
gi 1958697724  2098 VRPYHCTYCNFSFKTKGNLTKHMKSKAHSKKC 2129
Cdd:smart00451    1 TGGFYCKLCNVTFTDEISVEAHLKGKKHKKNV 32
ZnF_C2H2 smart00355
zinc finger;
2073-2095 7.25e-03

zinc finger;


Pssm-ID: 197676  Cd Length: 23  Bit Score: 35.90  E-value: 7.25e-03
                            10        20
                    ....*....|....*....|...
gi 1958697724  2073 YICEECGIRCKKPSMLKKHIRTH 2095
Cdd:smart00355    1 YRCPECGKVFKSKSALREHMRTH 23
PRK10263 PRK10263
DNA translocase FtsK; Provisional
 2500-2666 8.73e-03

DNA translocase FtsK; Provisional


Pssm-ID: 236669 [Multi-domain]  Cd Length: 1355  Bit Score: 41.61  E-value: 8.73e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958697724 2500 PQVHPPGLALNA-----VGLQVLANAPAQSSPATQTHIPGLQILNIALPTLIPSVGPVAVGTAGTPETATS---NSKTVE 2571
Cdd:PRK10263   384 SQYAQPAVQYNEplqqpVQPQQPYYAPAAEQPAQQPYYAPAPEQPAQQPYYAPAPEQPVAGNAWQAEEQQStfaPQSTYQ 463

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958697724 2572 PQTPAGQGHSAEPPQRLPEGPQETPQTVPGPSVDHARPDGSSKMDTKKVASAshvlpgRSSAQAQPA----PIPEALQKI 2647
Cdd:PRK10263   464 TEQTYQQPAAQEPLYQQPQPVEQQPVVEPEPVVEETKPARPPLYYFEEVEEK------RAREREQLAawyqPIPEPVKEP 537

                          170
                   ....*....|....*....
gi 1958697724 2648 VASGPtSLPTDRPAPRPPV 2666
Cdd:PRK10263   538 EPIKS-SLKAPSVAAVPPV 555
PRK12323 PRK12323
DNA polymerase III subunit gamma/tau;
2500-2665 9.97e-03

DNA polymerase III subunit gamma/tau;


Pssm-ID: 237057 [Multi-domain]  Cd Length: 700  Bit Score: 41.40  E-value: 9.97e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958697724 2500 PQVHPPGLALNAVGLQVLANAPAQSSPATQTHIPGLQILNI-ALPTLIPSVGPVAVGTAGT-PETATSNSKTVEPQTPAG 2577
Cdd:PRK12323   402 PPAAPAAAPAAAAAARAVAAAPARRSPAPEALAAARQASARgPGGAPAPAPAPAAAPAAAArPAAAGPRPVAAAAAAAPA 481

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958697724 2578 QGHSAEPPQRLPEGP---QETPQTVPGPSVDHARPDGSSkmdtkkVASASHVLPGRSSAQAQPAPIPEALQKIVASGPTS 2654
Cdd:PRK12323   482 RAAPAAAPAPADDDPppwEELPPEFASPAPAQPDAAPAG------WVAESIPDPATADPDDAFETLAPAPAAAPAPRAAA 555

                          170
                   ....*....|.
gi 1958697724 2655 LPTDRPAPRPP 2665
Cdd:PRK12323   556 ATEPVVAPRPP 566
 
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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