NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|219278723|ref|NP_001100898|]
View 

zinc finger protein 23 [Rattus norvegicus]

Protein Classification

KRAB domain-containing zinc finger protein( domain architecture ID 12204268)

KRAB (Kruppel-associated box) domain-containing zinc finger protein (KRAB-ZFP) plays important roles in cell differentiation and organ development, and in regulating viral replication and transcription

CATH:  3.30.160.60
Gene Ontology:  GO:0003700|GO:0046872
PubMed:  22803940
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
KRAB smart00349
krueppel associated box;
14-74 1.59e-28

krueppel associated box;


:

Pssm-ID: 214630 [Multi-domain]  Cd Length: 61  Bit Score: 108.06  E-value: 1.59e-28
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 219278723    14 VTFEDVAVYFTQTEWDGLSPEQRALYRDVMLENYRNLASVGFPLLKPAVISQLEEGEDLES 74
Cdd:smart00349   1 VTFEDVAVYFTQEEWEQLDPAQKNLYRDVMLENYSNLVSLGFQVPKPDLISQLEQGEEPWI 61
COG5048 COG5048
FOG: Zn-finger [General function prediction only];
254-660 9.61e-15

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


:

Pssm-ID: 227381 [Multi-domain]  Cd Length: 467  Bit Score: 77.04  E-value: 9.61e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 219278723 254 KPFKCVECGKCFSYSSHYITHQTIHSGEKPYQCKV--CGKAFSVNGSLVRHQRIHTGEKPYQC--KECGTGFGCSSAYIT 329
Cdd:COG5048   32 RPDSCPNCTDSFSRLEHLTRHIRSHTGEKPSQCSYsgCDKSFSRPLELSRHLRTHHNNPSDLNskSLPLSNSKASSSSLS 111

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 219278723 330 HQRTHTgekPYECSDCGKAFNVNAKLIQHQRIHTGEKPYECdVCGKGFRCSTQLRQHQSIHtgeKPHRCSECGKGFTKNA 409
Cdd:COG5048  112 SSSSNS---NDNNLLSSHSLPPSSRDPQLPDLLSISNLRNN-PLPGNNSSSVNTPQSNSLH---PPLPANSLSKDPSSNL 184

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 219278723 410 KLIQHQRVHTGEKPYACSDCGKTFSAKGKLIQHQRIHTGERPYECSECGKSFRCNSQLRQHLRIHTGEKPYKCNECGKAF 489
Cdd:COG5048  185 SLLISSNVSTSIPSSSENSPLSSSYSIPSSSSDQNLENSSSSLPLTTNSQLSPKSLLSQSPSSLSSSDSSSSASESPRSS 264

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 219278723 490 NVNAKLMQHRRTHTGE-------KPFECNECGKCFTSKRNLLDHQRT--HTGE--KPYQCKE--CGKAFSINAKLTRHQQ 556
Cdd:COG5048  265 LPTASSQSSSPNESDSssekgfsLPIKSKQCNISFSRSSPLTRHLRSvnHSGEslKPFSCPYslCGKLFSRNDALKRHIL 344

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 219278723 557 IHTREKPFKCMEC-------EKAFSCSSDYIVHQRIHTGEKPFQC--SECGKAFHVNAHLIRHQRSHTGEKP--FRCMEC 625
Cdd:COG5048  345 LHTSISPAKEKLLnssskfsPLLNNEPPQSLQQYKDLKNDKKSETlsNSCIRNFKRDSNLSLHIITHLSFRPynCKNPPC 424

                        410       420       430
                 ....*....|....*....|....*....|....*
gi 219278723 626 GKGFSLSSDCIIHQTVHTWKKPYVCNICGKTFRFS 660
Cdd:COG5048  425 SKSFNRHYNLIPHKKIHTNHAPLLCSILKSFRRDL 459
 
Name Accession Description Interval E-value
KRAB smart00349
krueppel associated box;
14-74 1.59e-28

krueppel associated box;


Pssm-ID: 214630 [Multi-domain]  Cd Length: 61  Bit Score: 108.06  E-value: 1.59e-28
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 219278723    14 VTFEDVAVYFTQTEWDGLSPEQRALYRDVMLENYRNLASVGFPLLKPAVISQLEEGEDLES 74
Cdd:smart00349   1 VTFEDVAVYFTQEEWEQLDPAQKNLYRDVMLENYSNLVSLGFQVPKPDLISQLEQGEEPWI 61
KRAB pfam01352
KRAB box; The KRAB domain (or Kruppel-associated box) is present in about a third of zinc ...
 13-54 2.75e-23

KRAB box; The KRAB domain (or Kruppel-associated box) is present in about a third of zinc finger proteins containing C2H2 fingers. The KRAB domain is found to be involved in protein-protein interactions. The KRAB domain is generally encoded by two exons. The regions coded by the two exons are known as KRAB-A and KRAB-B. The A box plays an important role in repression by binding to corepressors, while the B box is thought to enhance this repression brought about by the A box. KRAB-containing proteins are thought to have critical functions in cell proliferation and differentiation, apoptosis and neoplastic transformation.


Pssm-ID: 460171  Cd Length: 42  Bit Score: 92.53  E-value: 2.75e-23
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 219278723   13 SVTFEDVAVYFTQTEWDGLSPEQRALYRDVMLENYRNLASVG 54
Cdd:pfam01352   1 SVTFEDVAVDFTQEEWALLDPAQRNLYRDVMLENYRNLVSLG 42
KRAB_A-box cd07765
KRAB (Kruppel-associated box) domain -A box; The KRAB domain is a transcription repression ...
 14-52 3.48e-19

KRAB (Kruppel-associated box) domain -A box; The KRAB domain is a transcription repression module, found in a subgroup of the zinc finger proteins (ZFPs) of the C2H2 family, KRAB-ZFPs. KRAB-ZFPs comprise the largest group of transcriptional regulators in mammals, and are only found in tetrapods. These proteins have been shown to play important roles in cell differentiation and organ development, and in regulating viral replication and transcription. A KRAB domain may consist of an A-box, or of an A-box plus either a B-box, a divergent B-box (b), or a C-box. Only the A-box is included in this model. The A-box is needed for repression, the B- and C- boxes are not. KRAB-ZFPs have one or two KRAB domains at their amino-terminal end, and multiple C2H2 zinc finger motifs at their C-termini. Some KRAB-ZFPs also contain a SCAN domain which mediates homo- and hetero-oligomerization. The KRAB domain is a protein-protein interaction module which represses transcription through recruiting corepressors. A key mechanism appears to be the following: KRAB-AFPs tethered to DNA recruit, via their KRAB domain, the repressor KAP1 (KRAB-associated protein-1, also known as transcription intermediary factor 1 beta , KRAB-A interacting protein , and tripartite motif protein 28). The KAP1/ KRAB-AFP complex in turn recruits the heterochromatin protein 1 (HP1) family, and other chromatin modulating proteins, leading to transcriptional repression through heterochromatin formation.


Pssm-ID: 143639  Cd Length: 40  Bit Score: 81.06  E-value: 3.48e-19
                         10        20        30
                 ....*....|....*....|....*....|....*....
gi 219278723  14 VTFEDVAVYFTQTEWDGLSPEQRALYRDVMLENYRNLAS 52
Cdd:cd07765    1 VTFEDVAVYFSQEEWELLDPAQRDLYRDVMLENYENLVS 39
COG5048 COG5048
FOG: Zn-finger [General function prediction only];
254-660 9.61e-15

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


Pssm-ID: 227381 [Multi-domain]  Cd Length: 467  Bit Score: 77.04  E-value: 9.61e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 219278723 254 KPFKCVECGKCFSYSSHYITHQTIHSGEKPYQCKV--CGKAFSVNGSLVRHQRIHTGEKPYQC--KECGTGFGCSSAYIT 329
Cdd:COG5048   32 RPDSCPNCTDSFSRLEHLTRHIRSHTGEKPSQCSYsgCDKSFSRPLELSRHLRTHHNNPSDLNskSLPLSNSKASSSSLS 111

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 219278723 330 HQRTHTgekPYECSDCGKAFNVNAKLIQHQRIHTGEKPYECdVCGKGFRCSTQLRQHQSIHtgeKPHRCSECGKGFTKNA 409
Cdd:COG5048  112 SSSSNS---NDNNLLSSHSLPPSSRDPQLPDLLSISNLRNN-PLPGNNSSSVNTPQSNSLH---PPLPANSLSKDPSSNL 184

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 219278723 410 KLIQHQRVHTGEKPYACSDCGKTFSAKGKLIQHQRIHTGERPYECSECGKSFRCNSQLRQHLRIHTGEKPYKCNECGKAF 489
Cdd:COG5048  185 SLLISSNVSTSIPSSSENSPLSSSYSIPSSSSDQNLENSSSSLPLTTNSQLSPKSLLSQSPSSLSSSDSSSSASESPRSS 264

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 219278723 490 NVNAKLMQHRRTHTGE-------KPFECNECGKCFTSKRNLLDHQRT--HTGE--KPYQCKE--CGKAFSINAKLTRHQQ 556
Cdd:COG5048  265 LPTASSQSSSPNESDSssekgfsLPIKSKQCNISFSRSSPLTRHLRSvnHSGEslKPFSCPYslCGKLFSRNDALKRHIL 344

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 219278723 557 IHTREKPFKCMEC-------EKAFSCSSDYIVHQRIHTGEKPFQC--SECGKAFHVNAHLIRHQRSHTGEKP--FRCMEC 625
Cdd:COG5048  345 LHTSISPAKEKLLnssskfsPLLNNEPPQSLQQYKDLKNDKKSETlsNSCIRNFKRDSNLSLHIITHLSFRPynCKNPPC 424

                        410       420       430
                 ....*....|....*....|....*....|....*
gi 219278723 626 GKGFSLSSDCIIHQTVHTWKKPYVCNICGKTFRFS 660
Cdd:COG5048  425 SKSFNRHYNLIPHKKIHTNHAPLLCSILKSFRRDL 459
zf-H2C2_2 pfam13465
Zinc-finger double domain;
467-490 2.83e-05

Zinc-finger double domain;


Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 41.20  E-value: 2.83e-05
                          10        20
                  ....*....|....*....|....
gi 219278723  467 LRQHLRIHTGEKPYKCNECGKAFN 490
Cdd:pfam13465   2 LKRHMRTHTGEKPYKCPECGKSFK 25
SUF4-like cd20908
N-terminal domain of Oryza sativa transcription factor SUPPRESSOR OF FRI 4 (OsSUF4), ...
 590-642 9.30e-03

N-terminal domain of Oryza sativa transcription factor SUPPRESSOR OF FRI 4 (OsSUF4), Arabidopsis thaliana SUF4 (AtSUF4), and similar proteins; Oryza sativa SUPPRESSOR OF FRI 4 (OsSUF4) is a C2H2-type zinc finger transcription factor which interacts with the major H3K36 methyltransferase SDG725 to promote H3K36me3 (tri-methylation at H3K9) establishment. The transcription factor OsSUF4 recognizes a specific 7-bp DNA element (5'-CGGAAAT-3'), which is contained in the promoter regions of many genes throughout the rice genome. Through interaction with OsSUF4, SDG725 is recruited to the promoters of key florigen genes, RICE FLOWERING LOCUS T1 (RFT1) and Heading date 3a (Hd3a), for H3K36 deposition to promote gene activation and rice plant flowering. OsSUF4 target genes include a number of genes involved in many biological processes. Flowering plant Arabidopsis SUF4 binds to a 15bp DNA element (5'-CCAAATTTTAAGTTT-3') within the promoter of the floral repressor gene FLOWERING LOCUS C (FLC) and recruits the FRI-C transcription activator complex to the FLC promoter. Although the DNA-binding element and target genes of AtSUF4 are different from those of OsSUF4, AtSUF4 is known to interact with the Arabidopsis H3K36 methyltransferase SDG8 (also known as ASHH2/EFS/SET8), and the methylation deposition mechanism mediated by the SUF4 transcription factor and H3K36 methyltransferase may be conserved in Arabidopsis and rice. Proteins in this family have two conserved C2H2-type zinc finger motifs at the N-terminus (included in this model), and a large proline-rich domain at the C-terminus; for OsSUF4, it has been shown that the N-terminal zinc-finger domain is responsible for DNA binding, and that the C-terminal domain interacts with SDG725.


Pssm-ID: 411020 [Multi-domain]  Cd Length: 82  Bit Score: 35.61  E-value: 9.30e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 219278723 590 KPFqCSECGKAFHVNAHLIRHQRSHTgekpFRCMECGKGFSLSSDCIIH-QTVH 642
Cdd:cd20908    1 KPW-CYYCDREFDDEKILIQHQKAKH----FKCHICHKKLYTAGGLAVHcLQVH 49
 
Name Accession Description Interval E-value
KRAB smart00349
krueppel associated box;
14-74 1.59e-28

krueppel associated box;


Pssm-ID: 214630 [Multi-domain]  Cd Length: 61  Bit Score: 108.06  E-value: 1.59e-28
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 219278723    14 VTFEDVAVYFTQTEWDGLSPEQRALYRDVMLENYRNLASVGFPLLKPAVISQLEEGEDLES 74
Cdd:smart00349   1 VTFEDVAVYFTQEEWEQLDPAQKNLYRDVMLENYSNLVSLGFQVPKPDLISQLEQGEEPWI 61
KRAB pfam01352
KRAB box; The KRAB domain (or Kruppel-associated box) is present in about a third of zinc ...
 13-54 2.75e-23

KRAB box; The KRAB domain (or Kruppel-associated box) is present in about a third of zinc finger proteins containing C2H2 fingers. The KRAB domain is found to be involved in protein-protein interactions. The KRAB domain is generally encoded by two exons. The regions coded by the two exons are known as KRAB-A and KRAB-B. The A box plays an important role in repression by binding to corepressors, while the B box is thought to enhance this repression brought about by the A box. KRAB-containing proteins are thought to have critical functions in cell proliferation and differentiation, apoptosis and neoplastic transformation.


Pssm-ID: 460171  Cd Length: 42  Bit Score: 92.53  E-value: 2.75e-23
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 219278723   13 SVTFEDVAVYFTQTEWDGLSPEQRALYRDVMLENYRNLASVG 54
Cdd:pfam01352   1 SVTFEDVAVDFTQEEWALLDPAQRNLYRDVMLENYRNLVSLG 42
KRAB_A-box cd07765
KRAB (Kruppel-associated box) domain -A box; The KRAB domain is a transcription repression ...
 14-52 3.48e-19

KRAB (Kruppel-associated box) domain -A box; The KRAB domain is a transcription repression module, found in a subgroup of the zinc finger proteins (ZFPs) of the C2H2 family, KRAB-ZFPs. KRAB-ZFPs comprise the largest group of transcriptional regulators in mammals, and are only found in tetrapods. These proteins have been shown to play important roles in cell differentiation and organ development, and in regulating viral replication and transcription. A KRAB domain may consist of an A-box, or of an A-box plus either a B-box, a divergent B-box (b), or a C-box. Only the A-box is included in this model. The A-box is needed for repression, the B- and C- boxes are not. KRAB-ZFPs have one or two KRAB domains at their amino-terminal end, and multiple C2H2 zinc finger motifs at their C-termini. Some KRAB-ZFPs also contain a SCAN domain which mediates homo- and hetero-oligomerization. The KRAB domain is a protein-protein interaction module which represses transcription through recruiting corepressors. A key mechanism appears to be the following: KRAB-AFPs tethered to DNA recruit, via their KRAB domain, the repressor KAP1 (KRAB-associated protein-1, also known as transcription intermediary factor 1 beta , KRAB-A interacting protein , and tripartite motif protein 28). The KAP1/ KRAB-AFP complex in turn recruits the heterochromatin protein 1 (HP1) family, and other chromatin modulating proteins, leading to transcriptional repression through heterochromatin formation.


Pssm-ID: 143639  Cd Length: 40  Bit Score: 81.06  E-value: 3.48e-19
                         10        20        30
                 ....*....|....*....|....*....|....*....
gi 219278723  14 VTFEDVAVYFTQTEWDGLSPEQRALYRDVMLENYRNLAS 52
Cdd:cd07765    1 VTFEDVAVYFSQEEWELLDPAQRDLYRDVMLENYENLVS 39
COG5048 COG5048
FOG: Zn-finger [General function prediction only];
254-660 9.61e-15

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


Pssm-ID: 227381 [Multi-domain]  Cd Length: 467  Bit Score: 77.04  E-value: 9.61e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 219278723 254 KPFKCVECGKCFSYSSHYITHQTIHSGEKPYQCKV--CGKAFSVNGSLVRHQRIHTGEKPYQC--KECGTGFGCSSAYIT 329
Cdd:COG5048   32 RPDSCPNCTDSFSRLEHLTRHIRSHTGEKPSQCSYsgCDKSFSRPLELSRHLRTHHNNPSDLNskSLPLSNSKASSSSLS 111

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 219278723 330 HQRTHTgekPYECSDCGKAFNVNAKLIQHQRIHTGEKPYECdVCGKGFRCSTQLRQHQSIHtgeKPHRCSECGKGFTKNA 409
Cdd:COG5048  112 SSSSNS---NDNNLLSSHSLPPSSRDPQLPDLLSISNLRNN-PLPGNNSSSVNTPQSNSLH---PPLPANSLSKDPSSNL 184

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 219278723 410 KLIQHQRVHTGEKPYACSDCGKTFSAKGKLIQHQRIHTGERPYECSECGKSFRCNSQLRQHLRIHTGEKPYKCNECGKAF 489
Cdd:COG5048  185 SLLISSNVSTSIPSSSENSPLSSSYSIPSSSSDQNLENSSSSLPLTTNSQLSPKSLLSQSPSSLSSSDSSSSASESPRSS 264

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 219278723 490 NVNAKLMQHRRTHTGE-------KPFECNECGKCFTSKRNLLDHQRT--HTGE--KPYQCKE--CGKAFSINAKLTRHQQ 556
Cdd:COG5048  265 LPTASSQSSSPNESDSssekgfsLPIKSKQCNISFSRSSPLTRHLRSvnHSGEslKPFSCPYslCGKLFSRNDALKRHIL 344

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 219278723 557 IHTREKPFKCMEC-------EKAFSCSSDYIVHQRIHTGEKPFQC--SECGKAFHVNAHLIRHQRSHTGEKP--FRCMEC 625
Cdd:COG5048  345 LHTSISPAKEKLLnssskfsPLLNNEPPQSLQQYKDLKNDKKSETlsNSCIRNFKRDSNLSLHIITHLSFRPynCKNPPC 424

                        410       420       430
                 ....*....|....*....|....*....|....*
gi 219278723 626 GKGFSLSSDCIIHQTVHTWKKPYVCNICGKTFRFS 660
Cdd:COG5048  425 SKSFNRHYNLIPHKKIHTNHAPLLCSILKSFRRDL 459
COG5048 COG5048
FOG: Zn-finger [General function prediction only];
226-578 3.87e-11

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


Pssm-ID: 227381 [Multi-domain]  Cd Length: 467  Bit Score: 65.87  E-value: 3.87e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 219278723 226 KPYQCTECGKAFSVKAKFVWHQRLHNGEKPFKC--VECGKCFSYSSHYITHQTIHSGE---------------------- 281
Cdd:COG5048   32 RPDSCPNCTDSFSRLEHLTRHIRSHTGEKPSQCsySGCDKSFSRPLELSRHLRTHHNNpsdlnskslplsnskassssls 111

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 219278723 282 -------KPYQCKVCGKAFSVNGSLVRHQRIHTGEKPYQCKECGTGFGCSSAY----------------------ITHQR 332
Cdd:COG5048  112 ssssnsnDNNLLSSHSLPPSSRDPQLPDLLSISNLRNNPLPGNNSSSVNTPQSnslhpplpanslskdpssnlslLISSN 191

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 219278723 333 THTGEKPYECSDCGKAFNVNAKLIQHQRIHTGEKPYECDVCGKGFRCSTQLRQHQSIHTGEKPHRCSECGKGFTKNAKLI 412
Cdd:COG5048  192 VSTSIPSSSENSPLSSSYSIPSSSSDQNLENSSSSLPLTTNSQLSPKSLLSQSPSSLSSSDSSSSASESPRSSLPTASSQ 271

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 219278723 413 QHQRVHTGE-------KPYACSDCGKTFSAKGKLIQHQR--IHTGE--RPYECSE--CGKSFRCNSQLRQHLRIHTGEKP 479
Cdd:COG5048  272 SSSPNESDSssekgfsLPIKSKQCNISFSRSSPLTRHLRsvNHSGEslKPFSCPYslCGKLFSRNDALKRHILLHTSISP 351

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 219278723 480 YKCNEC-------GKAFNVNAKLMQHRRTHTGEKPFEC--NECGKCFTSKRNLLDHQRTHTGEKPYQCK--ECGKAFSIN 548
Cdd:COG5048  352 AKEKLLnssskfsPLLNNEPPQSLQQYKDLKNDKKSETlsNSCIRNFKRDSNLSLHIITHLSFRPYNCKnpPCSKSFNRH 431

                        410       420       430
                 ....*....|....*....|....*....|
gi 219278723 549 AKLTRHQQIHTREKPFKCMECEKAFSCSSD 578
Cdd:COG5048  432 YNLIPHKKIHTNHAPLLCSILKSFRRDLDL 461
COG5048 COG5048
FOG: Zn-finger [General function prediction only];
162-465 3.50e-08

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


Pssm-ID: 227381 [Multi-domain]  Cd Length: 467  Bit Score: 56.24  E-value: 3.50e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 219278723 162 HLPSPMPHLSQDHASSAGEQYSDTKLTKNekITAQETPLKHKELAEASQGSSQVNQLPEScdvekPYQCTECGKAFSVKA 241
Cdd:COG5048  168 HPPLPANSLSKDPSSNLSLLISSNVSTSI--PSSSENSPLSSSYSIPSSSSDQNLENSSS-----SLPLTTNSQLSPKSL 240

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 219278723 242 KFVWHQRLHNGEKPFKCVECGKCFSYSSHYITHQTIHSGE-------KPYQCKVCGKAFSVNGSLVRHQR--IHTGE--K 310
Cdd:COG5048  241 LSQSPSSLSSSDSSSSASESPRSSLPTASSQSSSPNESDSssekgfsLPIKSKQCNISFSRSSPLTRHLRsvNHSGEslK 320

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 219278723 311 PYQCKE--CGTGFGCSSAYITHQRTHTGEKPYECsdcgkafnvnaKLIQHQRIHTGEKPYecdvcgkgfrCSTQLRQHQS 388
Cdd:COG5048  321 PFSCPYslCGKLFSRNDALKRHILLHTSISPAKE-----------KLLNSSSKFSPLLNN----------EPPQSLQQYK 379

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 219278723 389 IHTGEKPHRC--SECGKGFTKNAKLIQHQRVHTGEKPYAC--SDCGKTFSAKGKLIQHQRIHTGERPYECSECGKSFRCN 464
Cdd:COG5048  380 DLKNDKKSETlsNSCIRNFKRDSNLSLHIITHLSFRPYNCknPPCSKSFNRHYNLIPHKKIHTNHAPLLCSILKSFRRDL 459


                 .
gi 219278723 465 S 465
Cdd:COG5048  460 D 460
COG5048 COG5048
FOG: Zn-finger [General function prediction only];
366-675 3.56e-07

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


Pssm-ID: 227381 [Multi-domain]  Cd Length: 467  Bit Score: 53.16  E-value: 3.56e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 219278723 366 KPYECDVCGKGFRCSTQLRQHQSIHTGEKPHRCS--ECGKGFTKNAKLIQHQRVHTGEKPYACSDCGKT----------- 432
Cdd:COG5048   32 RPDSCPNCTDSFSRLEHLTRHIRSHTGEKPSQCSysGCDKSFSRPLELSRHLRTHHNNPSDLNSKSLPLsnskassssls 111

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 219278723 433 ----FSAKGKLIQHQRIHTGERPYE-CSECGKSFRCNSQLRQHLRIHTGEK-------PYKCNECGKAFNVNAKLMQHRR 500
Cdd:COG5048  112 ssssNSNDNNLLSSHSLPPSSRDPQlPDLLSISNLRNNPLPGNNSSSVNTPqsnslhpPLPANSLSKDPSSNLSLLISSN 191

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 219278723 501 THTGEKPFECNECGKCFTSKRNLLDHQRTHTGEKPYQCKECGKAFSINAKLTRHQQIHTREKPFKCMECEKAFSCSSDYI 580
Cdd:COG5048  192 VSTSIPSSSENSPLSSSYSIPSSSSDQNLENSSSSLPLTTNSQLSPKSLLSQSPSSLSSSDSSSSASESPRSSLPTASSQ 271

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 219278723 581 VHQRIHTGE-------KPFQCSECGKAFHVNAHLIRHQRS--HTGE--KPFRCME--CGKGFSLSSDCIIHQTVHTWKKP 647
Cdd:COG5048  272 SSSPNESDSssekgfsLPIKSKQCNISFSRSSPLTRHLRSvnHSGEslKPFSCPYslCGKLFSRNDALKRHILLHTSISP 351

                        330       340       350
                 ....*....|....*....|....*....|....*.
gi 219278723 648 YVC--NICGKTFRFSF------QLSQHQDVHNEDKS 675
Cdd:COG5048  352 AKEklLNSSSKFSPLLnneppqSLQQYKDLKNDKKS 387
zf-H2C2_2 pfam13465
Zinc-finger double domain;
467-490 2.83e-05

Zinc-finger double domain;


Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 41.20  E-value: 2.83e-05
                          10        20
                  ....*....|....*....|....
gi 219278723  467 LRQHLRIHTGEKPYKCNECGKAFN 490
Cdd:pfam13465   2 LKRHMRTHTGEKPYKCPECGKSFK 25
zf-H2C2_2 pfam13465
Zinc-finger double domain;
522-546 1.03e-04

Zinc-finger double domain;


Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 39.66  E-value: 1.03e-04
                          10        20
                  ....*....|....*....|....*
gi 219278723  522 NLLDHQRTHTGEKPYQCKECGKAFS 546
Cdd:pfam13465   1 NLKRHMRTHTGEKPYKCPECGKSFK 25
zf-H2C2_2 pfam13465
Zinc-finger double domain;
495-519 1.16e-04

Zinc-finger double domain;


Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 39.66  E-value: 1.16e-04
                          10        20
                  ....*....|....*....|....*
gi 219278723  495 LMQHRRTHTGEKPFECNECGKCFTS 519
Cdd:pfam13465   2 LKRHMRTHTGEKPYKCPECGKSFKS 26
zf-H2C2_2 pfam13465
Zinc-finger double domain;
606-630 2.57e-04

Zinc-finger double domain;


Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 38.51  E-value: 2.57e-04
                          10        20
                  ....*....|....*....|....*
gi 219278723  606 HLIRHQRSHTGEKPFRCMECGKGFS 630
Cdd:pfam13465   1 NLKRHMRTHTGEKPYKCPECGKSFK 25
zf-H2C2_2 pfam13465
Zinc-finger double domain;
439-463 3.66e-04

Zinc-finger double domain;


Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 38.12  E-value: 3.66e-04
                          10        20
                  ....*....|....*....|....*
gi 219278723  439 LIQHQRIHTGERPYECSECGKSFRC 463
Cdd:pfam13465   2 LKRHMRTHTGEKPYKCPECGKSFKS 26
zf-H2C2_2 pfam13465
Zinc-finger double domain;
355-379 4.87e-04

Zinc-finger double domain;


Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 37.74  E-value: 4.87e-04
                          10        20
                  ....*....|....*....|....*
gi 219278723  355 LIQHQRIHTGEKPYECDVCGKGFRC 379
Cdd:pfam13465   2 LKRHMRTHTGEKPYKCPECGKSFKS 26
COG5048 COG5048
FOG: Zn-finger [General function prediction only];
518-595 1.05e-03

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


Pssm-ID: 227381 [Multi-domain]  Cd Length: 467  Bit Score: 41.99  E-value: 1.05e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 219278723 518 TSKRNLLDHQRTHTGE----KPYQCKECGKAFSINAKLTRHQQIHTREKPFKCM--ECEKAFSCSSDYIVHQRIHTGEKP 591
Cdd:COG5048   12 NNSVLSSTPKSTLKSLsnapRPDSCPNCTDSFSRLEHLTRHIRSHTGEKPSQCSysGCDKSFSRPLELSRHLRTHHNNPS 91


                 ....
gi 219278723 592 FQCS 595
Cdd:COG5048   92 DLNS 95
zf-H2C2_2 pfam13465
Zinc-finger double domain;
330-350 1.50e-03

Zinc-finger double domain;


Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 36.20  E-value: 1.50e-03
                          10        20
                  ....*....|....*....|.
gi 219278723  330 HQRTHTGEKPYECSDCGKAFN 350
Cdd:pfam13465   5 HMRTHTGEKPYKCPECGKSFK 25
zf-H2C2_2 pfam13465
Zinc-finger double domain;
582-601 1.64e-03

Zinc-finger double domain;


Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 36.20  E-value: 1.64e-03
                          10        20
                  ....*....|....*....|
gi 219278723  582 HQRIHTGEKPFQCSECGKAF 601
Cdd:pfam13465   5 HMRTHTGEKPYKCPECGKSF 24
zf-C2H2 pfam00096
Zinc finger, C2H2 type; The C2H2 zinc finger is the classical zinc finger domain. The two ...
 508-530 1.74e-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: 1.74e-03
                          10        20
                  ....*....|....*....|...
gi 219278723  508 FECNECGKCFTSKRNLLDHQRTH 530
Cdd:pfam00096   1 YKCPDCGKSFSRKSNLKRHLRTH 23
zf-H2C2_2 pfam13465
Zinc-finger double domain;
383-407 1.94e-03

Zinc-finger double domain;


Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 36.20  E-value: 1.94e-03
                          10        20
                  ....*....|....*....|....*
gi 219278723  383 LRQHQSIHTGEKPHRCSECGKGFTK 407
Cdd:pfam13465   2 LKRHMRTHTGEKPYKCPECGKSFKS 26
zf-H2C2_2 pfam13465
Zinc-finger double domain;
298-318 2.91e-03

Zinc-finger double domain;


Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 35.42  E-value: 2.91e-03
                          10        20
                  ....*....|....*....|.
gi 219278723  298 SLVRHQRIHTGEKPYQCKECG 318
Cdd:pfam13465   1 NLKRHMRTHTGEKPYKCPECG 21
zf-H2C2_2 pfam13465
Zinc-finger double domain;
411-434 3.08e-03

Zinc-finger double domain;


Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 35.42  E-value: 3.08e-03
                          10        20
                  ....*....|....*....|....
gi 219278723  411 LIQHQRVHTGEKPYACSDCGKTFS 434
Cdd:pfam13465   2 LKRHMRTHTGEKPYKCPECGKSFK 25
SUF4-like cd20908
N-terminal domain of Oryza sativa transcription factor SUPPRESSOR OF FRI 4 (OsSUF4), ...
 590-642 9.30e-03

N-terminal domain of Oryza sativa transcription factor SUPPRESSOR OF FRI 4 (OsSUF4), Arabidopsis thaliana SUF4 (AtSUF4), and similar proteins; Oryza sativa SUPPRESSOR OF FRI 4 (OsSUF4) is a C2H2-type zinc finger transcription factor which interacts with the major H3K36 methyltransferase SDG725 to promote H3K36me3 (tri-methylation at H3K9) establishment. The transcription factor OsSUF4 recognizes a specific 7-bp DNA element (5'-CGGAAAT-3'), which is contained in the promoter regions of many genes throughout the rice genome. Through interaction with OsSUF4, SDG725 is recruited to the promoters of key florigen genes, RICE FLOWERING LOCUS T1 (RFT1) and Heading date 3a (Hd3a), for H3K36 deposition to promote gene activation and rice plant flowering. OsSUF4 target genes include a number of genes involved in many biological processes. Flowering plant Arabidopsis SUF4 binds to a 15bp DNA element (5'-CCAAATTTTAAGTTT-3') within the promoter of the floral repressor gene FLOWERING LOCUS C (FLC) and recruits the FRI-C transcription activator complex to the FLC promoter. Although the DNA-binding element and target genes of AtSUF4 are different from those of OsSUF4, AtSUF4 is known to interact with the Arabidopsis H3K36 methyltransferase SDG8 (also known as ASHH2/EFS/SET8), and the methylation deposition mechanism mediated by the SUF4 transcription factor and H3K36 methyltransferase may be conserved in Arabidopsis and rice. Proteins in this family have two conserved C2H2-type zinc finger motifs at the N-terminus (included in this model), and a large proline-rich domain at the C-terminus; for OsSUF4, it has been shown that the N-terminal zinc-finger domain is responsible for DNA binding, and that the C-terminal domain interacts with SDG725.


Pssm-ID: 411020 [Multi-domain]  Cd Length: 82  Bit Score: 35.61  E-value: 9.30e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 219278723 590 KPFqCSECGKAFHVNAHLIRHQRSHTgekpFRCMECGKGFSLSSDCIIH-QTVH 642
Cdd:cd20908    1 KPW-CYYCDREFDDEKILIQHQKAKH----FKCHICHKKLYTAGGLAVHcLQVH 49
 
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