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Conserved domains on  [gi|564383348|ref|XP_006250911|]
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RE1-silencing transcription factor isoform X1 [Rattus norvegicus]

Protein Classification

zf-H2C2_2 and zf-H2C2_5 domain-containing protein( domain architecture ID 11473584)

protein containing domains COG5048, zf-H2C2_2, and zf-H2C2_5

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
zf-H2C2_2 pfam13465
Zinc-finger double domain;
317-342 9.46e-06

Zinc-finger double domain;


:

Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 43.13  E-value: 9.46e-06
                           10        20
                   ....*....|....*....|....*.
gi 564383348   317 HLTRHMRTHSGEKPFKCDQCNYVASN 342
Cdd:pfam13465    1 NLKRHMRTHTGEKPYKCPECGKSFKS 26
zf-H2C2_5 pfam13909
C2H2-type zinc-finger domain;
303-327 9.88e-06

C2H2-type zinc-finger domain;


:

Pssm-ID: 404746 [Multi-domain]  Cd Length: 25  Bit Score: 42.92  E-value: 9.88e-06
                           10        20
                   ....*....|....*....|....*
gi 564383348   303 YKCELCPYSSSQKTHLTRHMRTHSG 327
Cdd:pfam13909    1 YKCSQCDYSTAWKSNLKRHLRKHTG 25
zf-H2C2_2 pfam13465
Zinc-finger double domain;
289-314 5.01e-05

Zinc-finger double domain;


:

Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 41.20  E-value: 5.01e-05
                           10        20
                   ....*....|....*....|....*.
gi 564383348   289 NYVQHVRTHTGERPYKCELCPYSSSQ 314
Cdd:pfam13465    1 NLKRHMRTHTGEKPYKCPECGKSFKS 26
COG5048 COG5048
FOG: Zn-finger [General function prediction only];
270-413 2.95e-04

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


:

Pssm-ID: 227381 [Multi-domain]  Cd Length: 467  Bit Score: 44.69  E-value: 2.95e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564383348  270 FPRKVYTCSKCNYFSDRKNNYVQHVRT--HTGE--RPYKC--ELCPYSSSQKTHLTRHMRTHSGEKPFKC--DQCNY--- 338
Cdd:COG5048   285 GFSLPIKSKQCNISFSRSSPLTRHLRSvnHSGEslKPFSCpySLCGKLFSRNDALKRHILLHTSISPAKEklLNSSSkfs 364

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564383348  339 --VASNQHEVTRHARQVHNGPKPLNCPHCDYK-TADRSNFKKHVELHVN--PRQFNCPVCdYAASKKCNLQYHFKSKHPT 413
Cdd:COG5048   365 plLNNEPPQSLQQYKDLKNDKKSETLSNSCIRnFKRDSNLSLHIITHLSfrPYNCKNPPC-SKSFNRHYNLIPHKKIHTN 443
 
Name Accession Description Interval E-value
zf-H2C2_2 pfam13465
Zinc-finger double domain;
317-342 9.46e-06

Zinc-finger double domain;


Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 43.13  E-value: 9.46e-06
                           10        20
                   ....*....|....*....|....*.
gi 564383348   317 HLTRHMRTHSGEKPFKCDQCNYVASN 342
Cdd:pfam13465    1 NLKRHMRTHTGEKPYKCPECGKSFKS 26
zf-H2C2_5 pfam13909
C2H2-type zinc-finger domain;
303-327 9.88e-06

C2H2-type zinc-finger domain;


Pssm-ID: 404746 [Multi-domain]  Cd Length: 25  Bit Score: 42.92  E-value: 9.88e-06
                           10        20
                   ....*....|....*....|....*
gi 564383348   303 YKCELCPYSSSQKTHLTRHMRTHSG 327
Cdd:pfam13909    1 YKCSQCDYSTAWKSNLKRHLRKHTG 25
zf-H2C2_2 pfam13465
Zinc-finger double domain;
289-314 5.01e-05

Zinc-finger double domain;


Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 41.20  E-value: 5.01e-05
                           10        20
                   ....*....|....*....|....*.
gi 564383348   289 NYVQHVRTHTGERPYKCELCPYSSSQ 314
Cdd:pfam13465    1 NLKRHMRTHTGEKPYKCPECGKSFKS 26
COG5048 COG5048
FOG: Zn-finger [General function prediction only];
301-380 1.73e-04

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


Pssm-ID: 227381 [Multi-domain]  Cd Length: 467  Bit Score: 45.46  E-value: 1.73e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564383348  301 RPYKCELCPYSSSQKTHLTRHMRTHSGEKPFKC--DQCNYVASNQHEVTRHARQVHNGPKPLNC---PHCDYKTADRSNF 375
Cdd:COG5048    32 RPDSCPNCTDSFSRLEHLTRHIRSHTGEKPSQCsySGCDKSFSRPLELSRHLRTHHNNPSDLNSkslPLSNSKASSSSLS 111


                  ....*
gi 564383348  376 KKHVE 380
Cdd:COG5048   112 SSSSN 116
COG5048 COG5048
FOG: Zn-finger [General function prediction only];
270-413 2.95e-04

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


Pssm-ID: 227381 [Multi-domain]  Cd Length: 467  Bit Score: 44.69  E-value: 2.95e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564383348  270 FPRKVYTCSKCNYFSDRKNNYVQHVRT--HTGE--RPYKC--ELCPYSSSQKTHLTRHMRTHSGEKPFKC--DQCNY--- 338
Cdd:COG5048   285 GFSLPIKSKQCNISFSRSSPLTRHLRSvnHSGEslKPFSCpySLCGKLFSRNDALKRHILLHTSISPAKEklLNSSSkfs 364

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564383348  339 --VASNQHEVTRHARQVHNGPKPLNCPHCDYK-TADRSNFKKHVELHVN--PRQFNCPVCdYAASKKCNLQYHFKSKHPT 413
Cdd:COG5048   365 plLNNEPPQSLQQYKDLKNDKKSETLSNSCIRnFKRDSNLSLHIITHLSfrPYNCKNPPC-SKSFNRHYNLIPHKKIHTN 443
zf-H2C2_5 pfam13909
C2H2-type zinc-finger domain;
362-382 1.45e-03

C2H2-type zinc-finger domain;


Pssm-ID: 404746 [Multi-domain]  Cd Length: 25  Bit Score: 36.76  E-value: 1.45e-03
                           10        20
                   ....*....|....*....|.
gi 564383348   362 CPHCDYKTADRSNFKKHVELH 382
Cdd:pfam13909    3 CSQCDYSTAWKSNLKRHLRKH 23
ZnF_C2H2 smart00355
zinc finger;
303-325 3.40e-03

zinc finger;


Pssm-ID: 197676  Cd Length: 23  Bit Score: 35.90  E-value: 3.40e-03
                            10        20
                    ....*....|....*....|...
gi 564383348    303 YKCELCPYSSSQKTHLTRHMRTH 325
Cdd:smart00355    1 YRCPECGKVFKSKSALREHMRTH 23
 
Name Accession Description Interval E-value
zf-H2C2_2 pfam13465
Zinc-finger double domain;
317-342 9.46e-06

Zinc-finger double domain;


Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 43.13  E-value: 9.46e-06
                           10        20
                   ....*....|....*....|....*.
gi 564383348   317 HLTRHMRTHSGEKPFKCDQCNYVASN 342
Cdd:pfam13465    1 NLKRHMRTHTGEKPYKCPECGKSFKS 26
zf-H2C2_5 pfam13909
C2H2-type zinc-finger domain;
303-327 9.88e-06

C2H2-type zinc-finger domain;


Pssm-ID: 404746 [Multi-domain]  Cd Length: 25  Bit Score: 42.92  E-value: 9.88e-06
                           10        20
                   ....*....|....*....|....*
gi 564383348   303 YKCELCPYSSSQKTHLTRHMRTHSG 327
Cdd:pfam13909    1 YKCSQCDYSTAWKSNLKRHLRKHTG 25
zf-H2C2_2 pfam13465
Zinc-finger double domain;
289-314 5.01e-05

Zinc-finger double domain;


Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 41.20  E-value: 5.01e-05
                           10        20
                   ....*....|....*....|....*.
gi 564383348   289 NYVQHVRTHTGERPYKCELCPYSSSQ 314
Cdd:pfam13465    1 NLKRHMRTHTGEKPYKCPECGKSFKS 26
zf-C2H2 pfam00096
Zinc finger, C2H2 type; The C2H2 zinc finger is the classical zinc finger domain. The two ...
 303-325 1.16e-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: 1.16e-04
                           10        20
                   ....*....|....*....|...
gi 564383348   303 YKCELCPYSSSQKTHLTRHMRTH 325
Cdd:pfam00096    1 YKCPDCGKSFSRKSNLKRHLRTH 23
COG5048 COG5048
FOG: Zn-finger [General function prediction only];
301-380 1.73e-04

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


Pssm-ID: 227381 [Multi-domain]  Cd Length: 467  Bit Score: 45.46  E-value: 1.73e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564383348  301 RPYKCELCPYSSSQKTHLTRHMRTHSGEKPFKC--DQCNYVASNQHEVTRHARQVHNGPKPLNC---PHCDYKTADRSNF 375
Cdd:COG5048    32 RPDSCPNCTDSFSRLEHLTRHIRSHTGEKPSQCsySGCDKSFSRPLELSRHLRTHHNNPSDLNSkslPLSNSKASSSSLS 111


                  ....*
gi 564383348  376 KKHVE 380
Cdd:COG5048   112 SSSSN 116
COG5048 COG5048
FOG: Zn-finger [General function prediction only];
270-413 2.95e-04

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


Pssm-ID: 227381 [Multi-domain]  Cd Length: 467  Bit Score: 44.69  E-value: 2.95e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564383348  270 FPRKVYTCSKCNYFSDRKNNYVQHVRT--HTGE--RPYKC--ELCPYSSSQKTHLTRHMRTHSGEKPFKC--DQCNY--- 338
Cdd:COG5048   285 GFSLPIKSKQCNISFSRSSPLTRHLRSvnHSGEslKPFSCpySLCGKLFSRNDALKRHILLHTSISPAKEklLNSSSkfs 364

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564383348  339 --VASNQHEVTRHARQVHNGPKPLNCPHCDYK-TADRSNFKKHVELHVN--PRQFNCPVCdYAASKKCNLQYHFKSKHPT 413
Cdd:COG5048   365 plLNNEPPQSLQQYKDLKNDKKSETLSNSCIRnFKRDSNLSLHIITHLSfrPYNCKNPPC-SKSFNRHYNLIPHKKIHTN 443
zf-H2C2_5 pfam13909
C2H2-type zinc-finger domain;
362-382 1.45e-03

C2H2-type zinc-finger domain;


Pssm-ID: 404746 [Multi-domain]  Cd Length: 25  Bit Score: 36.76  E-value: 1.45e-03
                           10        20
                   ....*....|....*....|.
gi 564383348   362 CPHCDYKTADRSNFKKHVELH 382
Cdd:pfam13909    3 CSQCDYSTAWKSNLKRHLRKH 23
zf-H2C2_5 pfam13909
C2H2-type zinc-finger domain;
275-299 2.42e-03

C2H2-type zinc-finger domain;


Pssm-ID: 404746 [Multi-domain]  Cd Length: 25  Bit Score: 36.37  E-value: 2.42e-03
                           10        20
                   ....*....|....*....|....*
gi 564383348   275 YTCSKCNYFSDRKNNYVQHVRTHTG 299
Cdd:pfam13909    1 YKCSQCDYSTAWKSNLKRHLRKHTG 25
ZnF_C2H2 smart00355
zinc finger;
303-325 3.40e-03

zinc finger;


Pssm-ID: 197676  Cd Length: 23  Bit Score: 35.90  E-value: 3.40e-03
                            10        20
                    ....*....|....*....|...
gi 564383348    303 YKCELCPYSSSQKTHLTRHMRTH 325
Cdd:smart00355    1 YRCPECGKVFKSKSALREHMRTH 23
 
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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