NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|18858925|ref|NP_571784|]
View 

zinc finger E-box-binding homeobox 1b [Danio rerio]

Protein Classification

zf-C2H2 and zf-H2C2_2 domain-containing protein( domain architecture ID 11084612)

protein containing domains zf-C2H2, homeodomain, and zf-H2C2_2

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;
223-246 2.13e-06

Zinc-finger double domain;


:

Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 45.05  E-value: 2.13e-06
                           10        20
                   ....*....|....*....|....
gi 18858925    223 HLKEHLRIHSGEKPYECSNCKKRF 246
Cdd:pfam13465    1 NLKRHMRTHTGEKPYKCPECGKSF 24
zf-H2C2_2 pfam13465
Zinc-finger double domain;
873-898 2.24e-06

Zinc-finger double domain;


:

Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 45.05  E-value: 2.24e-06
                           10        20
                   ....*....|....*....|....*.
gi 18858925    873 HLIEHLRLHSGEKPYQCDKCGKRFSH 898
Cdd:pfam13465    1 NLKRHMRTHTGEKPYKCPECGKSFKS 26
zf-C2H2 pfam00096
Zinc finger, C2H2 type; The C2H2 zinc finger is the classical zinc finger domain. The two ...
 209-231 4.90e-06

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: 43.83  E-value: 4.90e-06
                           10        20
                   ....*....|....*....|...
gi 18858925    209 FKCTECGKAFKYKHHLKEHLRIH 231
Cdd:pfam00096    1 YKCPDCGKSFSRKSNLKRHLRTH 23
HOX smart00389
Homeodomain; DNA-binding factors that are involved in the transcriptional regulation of key ...
 538-574 9.51e-06

Homeodomain; DNA-binding factors that are involved in the transcriptional regulation of key developmental processes


:

Pssm-ID: 197696 [Multi-domain]  Cd Length: 57  Bit Score: 43.78  E-value: 9.51e-06
                            10        20        30
                    ....*....|....*....|....*....|....*..
gi 18858925     538 LSLLKAYFALNNEPTKEELAKISESVSLPAEVVKKWF 574
Cdd:smart00389   13 LEELEKEFQKNPYPSREEREELAKKLGLSERQVKVWF 49
zf-H2C2_2 pfam13465
Zinc-finger double domain;
845-870 3.55e-05

Zinc-finger double domain;


:

Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 41.59  E-value: 3.55e-05
                           10        20
                   ....*....|....*....|....*.
gi 18858925    845 SLLRHKYEHTGKRPHECGICSKAFKH 870
Cdd:pfam13465    1 NLKRHMRTHTGEKPYKCPECGKSFKS 26
 
Name Accession Description Interval E-value
zf-H2C2_2 pfam13465
Zinc-finger double domain;
223-246 2.13e-06

Zinc-finger double domain;


Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 45.05  E-value: 2.13e-06
                           10        20
                   ....*....|....*....|....
gi 18858925    223 HLKEHLRIHSGEKPYECSNCKKRF 246
Cdd:pfam13465    1 NLKRHMRTHTGEKPYKCPECGKSF 24
zf-H2C2_2 pfam13465
Zinc-finger double domain;
873-898 2.24e-06

Zinc-finger double domain;


Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 45.05  E-value: 2.24e-06
                           10        20
                   ....*....|....*....|....*.
gi 18858925    873 HLIEHLRLHSGEKPYQCDKCGKRFSH 898
Cdd:pfam13465    1 NLKRHMRTHTGEKPYKCPECGKSFKS 26
zf-C2H2 pfam00096
Zinc finger, C2H2 type; The C2H2 zinc finger is the classical zinc finger domain. The two ...
 209-231 4.90e-06

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: 43.83  E-value: 4.90e-06
                           10        20
                   ....*....|....*....|...
gi 18858925    209 FKCTECGKAFKYKHHLKEHLRIH 231
Cdd:pfam00096    1 YKCPDCGKSFSRKSNLKRHLRTH 23
HOX smart00389
Homeodomain; DNA-binding factors that are involved in the transcriptional regulation of key ...
 538-574 9.51e-06

Homeodomain; DNA-binding factors that are involved in the transcriptional regulation of key developmental processes


Pssm-ID: 197696 [Multi-domain]  Cd Length: 57  Bit Score: 43.78  E-value: 9.51e-06
                            10        20        30
                    ....*....|....*....|....*....|....*..
gi 18858925     538 LSLLKAYFALNNEPTKEELAKISESVSLPAEVVKKWF 574
Cdd:smart00389   13 LEELEKEFQKNPYPSREEREELAKKLGLSERQVKVWF 49
zf-H2C2_2 pfam13465
Zinc-finger double domain;
845-870 3.55e-05

Zinc-finger double domain;


Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 41.59  E-value: 3.55e-05
                           10        20
                   ....*....|....*....|....*.
gi 18858925    845 SLLRHKYEHTGKRPHECGICSKAFKH 870
Cdd:pfam13465    1 NLKRHMRTHTGEKPYKCPECGKSFKS 26
COG5048 COG5048
FOG: Zn-finger [General function prediction only];
856-909 2.26e-04

FOG: Zn-finger [General function prediction only];


Pssm-ID: 227381 [Multi-domain]  Cd Length: 467  Bit Score: 45.07  E-value: 2.26e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 18858925  856 KRPHECGICSKAFKHKHHLIEHLRLHSGEKPYQC--DKCGKRFSHSGSYSQHMNHR 909
Cdd:COG5048   31 PRPDSCPNCTDSFSRLEHLTRHIRSHTGEKPSQCsySGCDKSFSRPLELSRHLRTH 86
ZnF_C2H2 smart00355
zinc finger;
209-231 4.67e-04

zinc finger;


Pssm-ID: 197676  Cd Length: 23  Bit Score: 38.22  E-value: 4.67e-04
                            10        20
                    ....*....|....*....|...
gi 18858925     209 FKCTECGKAFKYKHHLKEHLRIH 231
Cdd:smart00355    1 YRCPECGKVFKSKSALREHMRTH 23
Homeodomain pfam00046
Homeodomain;
538-574 8.37e-04

Homeodomain;


Pssm-ID: 459649 [Multi-domain]  Cd Length: 57  Bit Score: 38.64  E-value: 8.37e-04
                           10        20        30
                   ....*....|....*....|....*....|....*..
gi 18858925    538 LSLLKAYFALNNEPTKEELAKISESVSLPAEVVKKWF 574
Cdd:pfam00046   12 LEELEKEFQENPYPSAEEREELAAQLGLTERQVKVWF 48
 
Name Accession Description Interval E-value
zf-H2C2_2 pfam13465
Zinc-finger double domain;
223-246 2.13e-06

Zinc-finger double domain;


Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 45.05  E-value: 2.13e-06
                           10        20
                   ....*....|....*....|....
gi 18858925    223 HLKEHLRIHSGEKPYECSNCKKRF 246
Cdd:pfam13465    1 NLKRHMRTHTGEKPYKCPECGKSF 24
zf-H2C2_2 pfam13465
Zinc-finger double domain;
873-898 2.24e-06

Zinc-finger double domain;


Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 45.05  E-value: 2.24e-06
                           10        20
                   ....*....|....*....|....*.
gi 18858925    873 HLIEHLRLHSGEKPYQCDKCGKRFSH 898
Cdd:pfam13465    1 NLKRHMRTHTGEKPYKCPECGKSFKS 26
zf-C2H2 pfam00096
Zinc finger, C2H2 type; The C2H2 zinc finger is the classical zinc finger domain. The two ...
 209-231 4.90e-06

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: 43.83  E-value: 4.90e-06
                           10        20
                   ....*....|....*....|...
gi 18858925    209 FKCTECGKAFKYKHHLKEHLRIH 231
Cdd:pfam00096    1 YKCPDCGKSFSRKSNLKRHLRTH 23
HOX smart00389
Homeodomain; DNA-binding factors that are involved in the transcriptional regulation of key ...
 538-574 9.51e-06

Homeodomain; DNA-binding factors that are involved in the transcriptional regulation of key developmental processes


Pssm-ID: 197696 [Multi-domain]  Cd Length: 57  Bit Score: 43.78  E-value: 9.51e-06
                            10        20        30
                    ....*....|....*....|....*....|....*..
gi 18858925     538 LSLLKAYFALNNEPTKEELAKISESVSLPAEVVKKWF 574
Cdd:smart00389   13 LEELEKEFQKNPYPSREEREELAKKLGLSERQVKVWF 49
zf-H2C2_2 pfam13465
Zinc-finger double domain;
845-870 3.55e-05

Zinc-finger double domain;


Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 41.59  E-value: 3.55e-05
                           10        20
                   ....*....|....*....|....*.
gi 18858925    845 SLLRHKYEHTGKRPHECGICSKAFKH 870
Cdd:pfam13465    1 NLKRHMRTHTGEKPYKCPECGKSFKS 26
COG5048 COG5048
FOG: Zn-finger [General function prediction only];
856-909 2.26e-04

FOG: Zn-finger [General function prediction only];


Pssm-ID: 227381 [Multi-domain]  Cd Length: 467  Bit Score: 45.07  E-value: 2.26e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 18858925  856 KRPHECGICSKAFKHKHHLIEHLRLHSGEKPYQC--DKCGKRFSHSGSYSQHMNHR 909
Cdd:COG5048   31 PRPDSCPNCTDSFSRLEHLTRHIRSHTGEKPSQCsySGCDKSFSRPLELSRHLRTH 86
zf-C2H2 pfam00096
Zinc finger, C2H2 type; The C2H2 zinc finger is the classical zinc finger domain. The two ...
 859-881 2.54e-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: 2.54e-04
                           10        20
                   ....*....|....*....|...
gi 18858925    859 HECGICSKAFKHKHHLIEHLRLH 881
Cdd:pfam00096    1 YKCPDCGKSFSRKSNLKRHLRTH 23
ZnF_C2H2 smart00355
zinc finger;
209-231 4.67e-04

zinc finger;


Pssm-ID: 197676  Cd Length: 23  Bit Score: 38.22  E-value: 4.67e-04
                            10        20
                    ....*....|....*....|...
gi 18858925     209 FKCTECGKAFKYKHHLKEHLRIH 231
Cdd:smart00355    1 YRCPECGKVFKSKSALREHMRTH 23
Homeodomain pfam00046
Homeodomain;
538-574 8.37e-04

Homeodomain;


Pssm-ID: 459649 [Multi-domain]  Cd Length: 57  Bit Score: 38.64  E-value: 8.37e-04
                           10        20        30
                   ....*....|....*....|....*....|....*..
gi 18858925    538 LSLLKAYFALNNEPTKEELAKISESVSLPAEVVKKWF 574
Cdd:pfam00046   12 LEELEKEFQENPYPSAEEREELAAQLGLTERQVKVWF 48
zf-C2H2_4 pfam13894
C2H2-type zinc finger; This family contains a number of divergent C2H2 type zinc fingers.
 209-231 4.85e-03

C2H2-type zinc finger; This family contains a number of divergent C2H2 type zinc fingers.


Pssm-ID: 464025  Cd Length: 24  Bit Score: 35.70  E-value: 4.85e-03
                           10        20
                   ....*....|....*....|...
gi 18858925    209 FKCTECGKAFKYKHHLKEHLRIH 231
Cdd:pfam13894    1 FKCPICGKSFSSKKSLKRHLKTH 23
zf-C2H2 pfam00096
Zinc finger, C2H2 type; The C2H2 zinc finger is the classical zinc finger domain. The two ...
 887-907 5.36e-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: 35.35  E-value: 5.36e-03
                           10        20
                   ....*....|....*....|.
gi 18858925    887 YQCDKCGKRFSHSGSYSQHMN 907
Cdd:pfam00096    1 YKCPDCGKSFSRKSNLKRHLR 21
 
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