NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|1958644939|ref|XP_038965795|]
View 

human immunodeficiency virus type I enhancer-binding protein 2 homolog isoform X1 [Rattus norvegicus]

Protein Classification

C2H2-type zinc finger protein( domain architecture ID 10443094)

Cys2His2 (C2H2)-type zinc finger protein may be involved in transcriptional regulation

CATH:  3.30.160.60
Gene Ontology:  GO:0008270|GO:0003677
PubMed:  11361095|22803940|30718982
SCOP:  4003583

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
zf-H2C2_2 pfam13465
Zinc-finger double domain;
204-228 9.06e-07

Zinc-finger double domain;


:

Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 46.98  E-value: 9.06e-07
                           10        20
                   ....*....|....*....|....*
gi 1958644939  204 LKKHIRSHTGERPYPCIPCGFSFKT 228
Cdd:pfam13465    2 LKRHMRTHTGEKPYKCPECGKSFKS 26
PTZ00449 super family cl33186
104 kDa microneme/rhoptry antigen; Provisional
 2024-2167 3.03e-05

104 kDa microneme/rhoptry antigen; Provisional


The actual alignment was detected with superfamily member PTZ00449:

Pssm-ID: 185628 [Multi-domain]  Cd Length: 943  Bit Score: 49.69  E-value: 3.03e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958644939 2024 SSSPRDfsPSSYRSS--PGYDSSPCRDNSPKR---YLIPKGDLSPRRHLSPRRDLSPMRHLSPRkeaalRREMSQGDASP 2098
Cdd:PTZ00449   585 PKHPKD--PEEPKKPkrPRSAQRPTRPKSPKLpelLDIPKSPKRPESPKSPKRPPPPQRPSSPE-----RPEGPKIIKSP 657

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1958644939 2099 RRHLSPRRPLSPG---KDITTRRDLSPRRERRYMTTIRAPSPRRALYHNPPLPMGQYLQTEPIVlgPPNLRR 2167
Cdd:PTZ00449   658 KPPKSPKPPFDPKfkeKFYDDYLDAAAKSKETKTTVVLDESFESILKETLPETPGTPFTTPRPL--PPKLPR 727
zf-H2C2_2 pfam13465
Zinc-finger double domain;
1804-1829 8.28e-05

Zinc-finger double domain;


:

Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 41.59  E-value: 8.28e-05
                           10        20
                   ....*....|....*....|....*.
gi 1958644939 1804 MLKKHIRTHTDVRPYVCKLCNFAFKT 1829
Cdd:pfam13465    1 NLKRHMRTHTGEKPYKCPECGKSFKS 26
zf-C2H2 pfam00096
Zinc finger, C2H2 type; The C2H2 zinc finger is the classical zinc finger domain. The two ...
 1790-1812 2.76e-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: 39.98  E-value: 2.76e-04
                           10        20
                   ....*....|....*....|...
gi 1958644939 1790 YICEECGIRCKKPSMLKKHIRTH 1812
Cdd:pfam00096    1 YKCPDCGKSFSRKSNLKRHLRTH 23
zf-C2H2 pfam00096
Zinc finger, C2H2 type; The C2H2 zinc finger is the classical zinc finger domain. The two ...
 189-211 7.22e-03

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: 36.12  E-value: 7.22e-03
                           10        20
                   ....*....|....*....|...
gi 1958644939  189 YICPYCSRACAKPSVLKKHIRSH 211
Cdd:pfam00096    1 YKCPDCGKSFSRKSNLKRHLRTH 23
PTZ00441 super family cl25523
sporozoite surface protein 2 (SSP2); Provisional
 824-935 9.72e-03

sporozoite surface protein 2 (SSP2); Provisional


The actual alignment was detected with superfamily member PTZ00441:

Pssm-ID: 240420 [Multi-domain]  Cd Length: 576  Bit Score: 41.10  E-value: 9.72e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958644939  824 QDKTPSPSEMGDsevlEGPVSPEWAPPGDGA---ESGSRPTPSQQVPQHSYHGQPRLVRQHNIQVPEIRVTEEPDKPEKE 900
Cdd:PTZ00441   327 QDPVPPPNEGKD----GNPNEENLFPPGDDEvpdESNVPPNPPNVPGGSNSEFSSDVENPPNPPNPDIPEQEPNIPEDSN 402

                           90       100       110
                   ....*....|....*....|....*....|....*....
gi 1958644939  901 KEAPT---KEPEKPVEE-FQWPQRSETLSQLPAEKLPPK 935
Cdd:PTZ00441   403 KEVPEdvpMEPEDDRDNnFNEPKKPENKGDGQNEPVIPK 441
 
Name Accession Description Interval E-value
zf-H2C2_2 pfam13465
Zinc-finger double domain;
204-228 9.06e-07

Zinc-finger double domain;


Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 46.98  E-value: 9.06e-07
                           10        20
                   ....*....|....*....|....*
gi 1958644939  204 LKKHIRSHTGERPYPCIPCGFSFKT 228
Cdd:pfam13465    2 LKRHMRTHTGEKPYKCPECGKSFKS 26
PTZ00449 PTZ00449
104 kDa microneme/rhoptry antigen; Provisional
 2024-2167 3.03e-05

104 kDa microneme/rhoptry antigen; Provisional


Pssm-ID: 185628 [Multi-domain]  Cd Length: 943  Bit Score: 49.69  E-value: 3.03e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958644939 2024 SSSPRDfsPSSYRSS--PGYDSSPCRDNSPKR---YLIPKGDLSPRRHLSPRRDLSPMRHLSPRkeaalRREMSQGDASP 2098
Cdd:PTZ00449   585 PKHPKD--PEEPKKPkrPRSAQRPTRPKSPKLpelLDIPKSPKRPESPKSPKRPPPPQRPSSPE-----RPEGPKIIKSP 657

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1958644939 2099 RRHLSPRRPLSPG---KDITTRRDLSPRRERRYMTTIRAPSPRRALYHNPPLPMGQYLQTEPIVlgPPNLRR 2167
Cdd:PTZ00449   658 KPPKSPKPPFDPKfkeKFYDDYLDAAAKSKETKTTVVLDESFESILKETLPETPGTPFTTPRPL--PPKLPR 727
zf-H2C2_2 pfam13465
Zinc-finger double domain;
1804-1829 8.28e-05

Zinc-finger double domain;


Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 41.59  E-value: 8.28e-05
                           10        20
                   ....*....|....*....|....*.
gi 1958644939 1804 MLKKHIRTHTDVRPYVCKLCNFAFKT 1829
Cdd:pfam13465    1 NLKRHMRTHTGEKPYKCPECGKSFKS 26
zf-C2H2 pfam00096
Zinc finger, C2H2 type; The C2H2 zinc finger is the classical zinc finger domain. The two ...
 1790-1812 2.76e-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: 39.98  E-value: 2.76e-04
                           10        20
                   ....*....|....*....|...
gi 1958644939 1790 YICEECGIRCKKPSMLKKHIRTH 1812
Cdd:pfam00096    1 YKCPDCGKSFSRKSNLKRHLRTH 23
zf-C2H2 pfam00096
Zinc finger, C2H2 type; The C2H2 zinc finger is the classical zinc finger domain. The two ...
 189-211 7.22e-03

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: 36.12  E-value: 7.22e-03
                           10        20
                   ....*....|....*....|...
gi 1958644939  189 YICPYCSRACAKPSVLKKHIRSH 211
Cdd:pfam00096    1 YKCPDCGKSFSRKSNLKRHLRTH 23
PTZ00441 PTZ00441
sporozoite surface protein 2 (SSP2); Provisional
 824-935 9.72e-03

sporozoite surface protein 2 (SSP2); Provisional


Pssm-ID: 240420 [Multi-domain]  Cd Length: 576  Bit Score: 41.10  E-value: 9.72e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958644939  824 QDKTPSPSEMGDsevlEGPVSPEWAPPGDGA---ESGSRPTPSQQVPQHSYHGQPRLVRQHNIQVPEIRVTEEPDKPEKE 900
Cdd:PTZ00441   327 QDPVPPPNEGKD----GNPNEENLFPPGDDEvpdESNVPPNPPNVPGGSNSEFSSDVENPPNPPNPDIPEQEPNIPEDSN 402

                           90       100       110
                   ....*....|....*....|....*....|....*....
gi 1958644939  901 KEAPT---KEPEKPVEE-FQWPQRSETLSQLPAEKLPPK 935
Cdd:PTZ00441   403 KEVPEdvpMEPEDDRDNnFNEPKKPENKGDGQNEPVIPK 441
 
Name Accession Description Interval E-value
zf-H2C2_2 pfam13465
Zinc-finger double domain;
204-228 9.06e-07

Zinc-finger double domain;


Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 46.98  E-value: 9.06e-07
                           10        20
                   ....*....|....*....|....*
gi 1958644939  204 LKKHIRSHTGERPYPCIPCGFSFKT 228
Cdd:pfam13465    2 LKRHMRTHTGEKPYKCPECGKSFKS 26
PTZ00449 PTZ00449
104 kDa microneme/rhoptry antigen; Provisional
 2024-2167 3.03e-05

104 kDa microneme/rhoptry antigen; Provisional


Pssm-ID: 185628 [Multi-domain]  Cd Length: 943  Bit Score: 49.69  E-value: 3.03e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958644939 2024 SSSPRDfsPSSYRSS--PGYDSSPCRDNSPKR---YLIPKGDLSPRRHLSPRRDLSPMRHLSPRkeaalRREMSQGDASP 2098
Cdd:PTZ00449   585 PKHPKD--PEEPKKPkrPRSAQRPTRPKSPKLpelLDIPKSPKRPESPKSPKRPPPPQRPSSPE-----RPEGPKIIKSP 657

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1958644939 2099 RRHLSPRRPLSPG---KDITTRRDLSPRRERRYMTTIRAPSPRRALYHNPPLPMGQYLQTEPIVlgPPNLRR 2167
Cdd:PTZ00449   658 KPPKSPKPPFDPKfkeKFYDDYLDAAAKSKETKTTVVLDESFESILKETLPETPGTPFTTPRPL--PPKLPR 727
zf-H2C2_2 pfam13465
Zinc-finger double domain;
1804-1829 8.28e-05

Zinc-finger double domain;


Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 41.59  E-value: 8.28e-05
                           10        20
                   ....*....|....*....|....*.
gi 1958644939 1804 MLKKHIRTHTDVRPYVCKLCNFAFKT 1829
Cdd:pfam13465    1 NLKRHMRTHTGEKPYKCPECGKSFKS 26
zf-C2H2 pfam00096
Zinc finger, C2H2 type; The C2H2 zinc finger is the classical zinc finger domain. The two ...
 1790-1812 2.76e-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: 39.98  E-value: 2.76e-04
                           10        20
                   ....*....|....*....|...
gi 1958644939 1790 YICEECGIRCKKPSMLKKHIRTH 1812
Cdd:pfam00096    1 YKCPDCGKSFSRKSNLKRHLRTH 23
zf-C2H2 pfam00096
Zinc finger, C2H2 type; The C2H2 zinc finger is the classical zinc finger domain. The two ...
 1818-1839 2.43e-03

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: 37.28  E-value: 2.43e-03
                           10        20
                   ....*....|....*....|..
gi 1958644939 1818 YVCKLCNFAFKTKGNLTKHMKS 1839
Cdd:pfam00096    1 YKCPDCGKSFSRKSNLKRHLRT 22
PTZ00449 PTZ00449
104 kDa microneme/rhoptry antigen; Provisional
 2019-2165 2.62e-03

104 kDa microneme/rhoptry antigen; Provisional


Pssm-ID: 185628 [Multi-domain]  Cd Length: 943  Bit Score: 43.14  E-value: 2.62e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958644939 2019 LSSEPSSSPRDFSPSSYRSSPgydsSPCRDNSPKRYLIPKGDLSPRRHLSPRRDLSP----MRHLSPRKEAALRRE---M 2091
Cdd:PTZ00449   617 LLDIPKSPKRPESPKSPKRPP----PPQRPSSPERPEGPKIIKSPKPPKSPKPPFDPkfkeKFYDDYLDAAAKSKEtktT 692

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958644939 2092 SQGDASPRRHLSPRRPLSPGKDITTRRDLSPRRERRYMTTIR------APSPRRALYHNPPLPMGQYLQTEPIVLGPPNL 2165
Cdd:PTZ00449   693 VVLDESFESILKETLPETPGTPFTTPRPLPPKLPRDEEFPFEpigdpdAEQPDDIEFFTPPEEERTFFHETPADTPLPDI 772
PTZ00449 PTZ00449
104 kDa microneme/rhoptry antigen; Provisional
 2028-2123 3.05e-03

104 kDa microneme/rhoptry antigen; Provisional


Pssm-ID: 185628 [Multi-domain]  Cd Length: 943  Bit Score: 43.14  E-value: 3.05e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958644939 2028 RDFSPSSYrssPGYDSSPcrdNSPKRYLIPKGDLSPRRHLSPRRDLSPMRHLSPRKEAALrrEMSQGDASPRRHLSPRRP 2107
Cdd:PTZ00449   565 KEHKPSKI---PTLSKKP---EFPKDPKHPKDPEEPKKPKRPRSAQRPTRPKSPKLPELL--DIPKSPKRPESPKSPKRP 636

                           90
                   ....*....|....*.
gi 1958644939 2108 LSPGKDITTRRDLSPR 2123
Cdd:PTZ00449   637 PPPQRPSSPERPEGPK 652
zf-C2H2 pfam00096
Zinc finger, C2H2 type; The C2H2 zinc finger is the classical zinc finger domain. The two ...
 189-211 7.22e-03

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: 36.12  E-value: 7.22e-03
                           10        20
                   ....*....|....*....|...
gi 1958644939  189 YICPYCSRACAKPSVLKKHIRSH 211
Cdd:pfam00096    1 YKCPDCGKSFSRKSNLKRHLRTH 23
PTZ00441 PTZ00441
sporozoite surface protein 2 (SSP2); Provisional
 824-935 9.72e-03

sporozoite surface protein 2 (SSP2); Provisional


Pssm-ID: 240420 [Multi-domain]  Cd Length: 576  Bit Score: 41.10  E-value: 9.72e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958644939  824 QDKTPSPSEMGDsevlEGPVSPEWAPPGDGA---ESGSRPTPSQQVPQHSYHGQPRLVRQHNIQVPEIRVTEEPDKPEKE 900
Cdd:PTZ00441   327 QDPVPPPNEGKD----GNPNEENLFPPGDDEvpdESNVPPNPPNVPGGSNSEFSSDVENPPNPPNPDIPEQEPNIPEDSN 402

                           90       100       110
                   ....*....|....*....|....*....|....*....
gi 1958644939  901 KEAPT---KEPEKPVEE-FQWPQRSETLSQLPAEKLPPK 935
Cdd:PTZ00441   403 KEVPEdvpMEPEDDRDNnFNEPKKPENKGDGQNEPVIPK 441
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

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