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Conserved domains on  [gi|564395690|ref|XP_006255628|]
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zinc finger protein 90 isoform X2 [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

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List of domain hits

 Name Accession Description Interval E-value
KRAB smart00349
krueppel associated box;
1-32 2.82e-15

krueppel associated box;


:

Pssm-ID: 214630 [Multi-domain]  Cd Length: 61  Bit Score: 70.31  E-value: 2.82e-15
                           10        20        30
                   ....*....|....*....|....*....|..
gi 564395690     1 MLENYSHLVSLGYQVSKPEVIFKLEQGEEPWI 32
Cdd:smart00349  30 MLENYSNLVSLGFQVPKPDLISQLEQGEEPWI 61
COG5048 COG5048
FOG: Zn-finger [General function prediction only];
156-583 3.59e-10

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


:

Pssm-ID: 227381 [Multi-domain]  Cd Length: 467  Bit Score: 62.41  E-value: 3.59e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564395690 156 TQSGIPAKKKPYKCDKCRKSFihrsSLNKHEKIHKDDaysngtdqgvPSGRKHHECTD--CGKTFLWRTQLTEHQRIHTG 233
Cdd:COG5048   23 TLKSLSNAPRPDSCPNCTDSF----SRLEHLTRHIRS----------HTGEKPSQCSYsgCDKSFSRPLELSRHLRTHHN 88

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564395690 234 EKPFECNVCGKAFRHSSSLGQHENAHT----GEKPYQCSLCGKAFQRSSSLVQHQRIHTGEKPYRCNLCGRSFRHSTSLT 309
Cdd:COG5048   89 NPSDLNSKSLPLSNSKASSSSLSSSSSnsndNNLLSSHSLPPSSRDPQLPDLLSISNLRNNPLPGNNSSSVNTPQSNSLH 168

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564395690 310 -QHEVTHSGEKPfqckecgkafSRCSSLVQHERTHTGEKPFECSICGRAFGQSPSLYKHMRIHKRSKPYQSNNFSIAFEP 388
Cdd:COG5048  169 pPLPANSLSKDP----------SSNLSLLISSNVSTSIPSSSENSPLSSSYSIPSSSSDQNLENSSSSLPLTTNSQLSPK 238

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564395690 389 NIPLtqgESVLTDVKSYHCIDCGKDFSHITDFTEHQRihAGENSYDSEQALRQQslshpreKPYQCNVCGKAFKRSTSFI 468
Cdd:COG5048  239 SLLS---QSPSSLSSSDSSSSASESPRSSLPTASSQS--SSPNESDSSSEKGFS-------LPIKSKQCNISFSRSSPLT 306

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564395690 469 EH--HRIHTGE--KPYECNE--CGEAFSRLSSLTQHERTHTGEKPYECI------------------------------- 511
Cdd:COG5048  307 RHlrSVNHSGEslKPFSCPYslCGKLFSRNDALKRHILLHTSISPAKEKllnssskfspllnneppqslqqykdlkndkk 386

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564395690 512 ------DCGKAFSQSSSLIQHERTHTGEKPYECN--ECGRAFRKKTNLHDHQRIHTGEKPYACkeCGKNFSRSSALTKHH 583
Cdd:COG5048  387 setlsnSCIRNFKRDSNLSLHIITHLSFRPYNCKnpPCSKSFNRHYNLIPHKKIHTNHAPLLC--SILKSFRRDLDLSNH 464
 
Name Accession Description Interval E-value
KRAB smart00349
krueppel associated box;
1-32 2.82e-15

krueppel associated box;


Pssm-ID: 214630 [Multi-domain]  Cd Length: 61  Bit Score: 70.31  E-value: 2.82e-15
                           10        20        30
                   ....*....|....*....|....*....|..
gi 564395690     1 MLENYSHLVSLGYQVSKPEVIFKLEQGEEPWI 32
Cdd:smart00349  30 MLENYSNLVSLGFQVPKPDLISQLEQGEEPWI 61
COG5048 COG5048
FOG: Zn-finger [General function prediction only];
156-583 3.59e-10

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


Pssm-ID: 227381 [Multi-domain]  Cd Length: 467  Bit Score: 62.41  E-value: 3.59e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564395690 156 TQSGIPAKKKPYKCDKCRKSFihrsSLNKHEKIHKDDaysngtdqgvPSGRKHHECTD--CGKTFLWRTQLTEHQRIHTG 233
Cdd:COG5048   23 TLKSLSNAPRPDSCPNCTDSF----SRLEHLTRHIRS----------HTGEKPSQCSYsgCDKSFSRPLELSRHLRTHHN 88

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564395690 234 EKPFECNVCGKAFRHSSSLGQHENAHT----GEKPYQCSLCGKAFQRSSSLVQHQRIHTGEKPYRCNLCGRSFRHSTSLT 309
Cdd:COG5048   89 NPSDLNSKSLPLSNSKASSSSLSSSSSnsndNNLLSSHSLPPSSRDPQLPDLLSISNLRNNPLPGNNSSSVNTPQSNSLH 168

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564395690 310 -QHEVTHSGEKPfqckecgkafSRCSSLVQHERTHTGEKPFECSICGRAFGQSPSLYKHMRIHKRSKPYQSNNFSIAFEP 388
Cdd:COG5048  169 pPLPANSLSKDP----------SSNLSLLISSNVSTSIPSSSENSPLSSSYSIPSSSSDQNLENSSSSLPLTTNSQLSPK 238

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564395690 389 NIPLtqgESVLTDVKSYHCIDCGKDFSHITDFTEHQRihAGENSYDSEQALRQQslshpreKPYQCNVCGKAFKRSTSFI 468
Cdd:COG5048  239 SLLS---QSPSSLSSSDSSSSASESPRSSLPTASSQS--SSPNESDSSSEKGFS-------LPIKSKQCNISFSRSSPLT 306

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564395690 469 EH--HRIHTGE--KPYECNE--CGEAFSRLSSLTQHERTHTGEKPYECI------------------------------- 511
Cdd:COG5048  307 RHlrSVNHSGEslKPFSCPYslCGKLFSRNDALKRHILLHTSISPAKEKllnssskfspllnneppqslqqykdlkndkk 386

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564395690 512 ------DCGKAFSQSSSLIQHERTHTGEKPYECN--ECGRAFRKKTNLHDHQRIHTGEKPYACkeCGKNFSRSSALTKHH 583
Cdd:COG5048  387 setlsnSCIRNFKRDSNLSLHIITHLSFRPYNCKnpPCSKSFNRHYNLIPHKKIHTNHAPLLC--SILKSFRRDLDLSNH 464
zf-H2C2_2 pfam13465
Zinc-finger double domain;
494-519 1.11e-04

Zinc-finger double domain;


Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 39.28  E-value: 1.11e-04
                          10        20
                  ....*....|....*....|....*.
gi 564395690  494 SLTQHERTHTGEKPYECIDCGKAFSQ 519
Cdd:pfam13465   1 NLKRHMRTHTGEKPYKCPECGKSFKS 26
SUF4-like cd20908
N-terminal domain of Oryza sativa transcription factor SUPPRESSOR OF FRI 4 (OsSUF4), ...
 319-374 7.54e-04

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: 38.69  E-value: 7.54e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 564395690 319 KPFqCKECGKAFSRCSSLVQHERTHTgekpFECSICGRAFGQSPSLYKH-MRIHKRS 374
Cdd:cd20908    1 KPW-CYYCDREFDDEKILIQHQKAKH----FKCHICHKKLYTAGGLAVHcLQVHKET 52
PHA00733 PHA00733
hypothetical protein
 264-311 9.51e-03

hypothetical protein


Pssm-ID: 177301  Cd Length: 128  Bit Score: 36.78  E-value: 9.51e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*...
gi 564395690 264 PYQCSLCGKAFQRSSSLVQHQRIHTGEKpyRCNLCGRSFRHSTSLTQH 311
Cdd:PHA00733  73 PYVCPLCLMPFSSSVSLKQHIRYTEHSK--VCPVCGKEFRNTDSTLDH 118
 
Name Accession Description Interval E-value
KRAB smart00349
krueppel associated box;
1-32 2.82e-15

krueppel associated box;


Pssm-ID: 214630 [Multi-domain]  Cd Length: 61  Bit Score: 70.31  E-value: 2.82e-15
                           10        20        30
                   ....*....|....*....|....*....|..
gi 564395690     1 MLENYSHLVSLGYQVSKPEVIFKLEQGEEPWI 32
Cdd:smart00349  30 MLENYSNLVSLGFQVPKPDLISQLEQGEEPWI 61
COG5048 COG5048
FOG: Zn-finger [General function prediction only];
156-583 3.59e-10

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


Pssm-ID: 227381 [Multi-domain]  Cd Length: 467  Bit Score: 62.41  E-value: 3.59e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564395690 156 TQSGIPAKKKPYKCDKCRKSFihrsSLNKHEKIHKDDaysngtdqgvPSGRKHHECTD--CGKTFLWRTQLTEHQRIHTG 233
Cdd:COG5048   23 TLKSLSNAPRPDSCPNCTDSF----SRLEHLTRHIRS----------HTGEKPSQCSYsgCDKSFSRPLELSRHLRTHHN 88

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564395690 234 EKPFECNVCGKAFRHSSSLGQHENAHT----GEKPYQCSLCGKAFQRSSSLVQHQRIHTGEKPYRCNLCGRSFRHSTSLT 309
Cdd:COG5048   89 NPSDLNSKSLPLSNSKASSSSLSSSSSnsndNNLLSSHSLPPSSRDPQLPDLLSISNLRNNPLPGNNSSSVNTPQSNSLH 168

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564395690 310 -QHEVTHSGEKPfqckecgkafSRCSSLVQHERTHTGEKPFECSICGRAFGQSPSLYKHMRIHKRSKPYQSNNFSIAFEP 388
Cdd:COG5048  169 pPLPANSLSKDP----------SSNLSLLISSNVSTSIPSSSENSPLSSSYSIPSSSSDQNLENSSSSLPLTTNSQLSPK 238

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564395690 389 NIPLtqgESVLTDVKSYHCIDCGKDFSHITDFTEHQRihAGENSYDSEQALRQQslshpreKPYQCNVCGKAFKRSTSFI 468
Cdd:COG5048  239 SLLS---QSPSSLSSSDSSSSASESPRSSLPTASSQS--SSPNESDSSSEKGFS-------LPIKSKQCNISFSRSSPLT 306

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564395690 469 EH--HRIHTGE--KPYECNE--CGEAFSRLSSLTQHERTHTGEKPYECI------------------------------- 511
Cdd:COG5048  307 RHlrSVNHSGEslKPFSCPYslCGKLFSRNDALKRHILLHTSISPAKEKllnssskfspllnneppqslqqykdlkndkk 386

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564395690 512 ------DCGKAFSQSSSLIQHERTHTGEKPYECN--ECGRAFRKKTNLHDHQRIHTGEKPYACkeCGKNFSRSSALTKHH 583
Cdd:COG5048  387 setlsnSCIRNFKRDSNLSLHIITHLSFRPYNCKnpPCSKSFNRHYNLIPHKKIHTNHAPLLC--SILKSFRRDLDLSNH 464
COG5048 COG5048
FOG: Zn-finger [General function prediction only];
291-587 3.66e-10

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


Pssm-ID: 227381 [Multi-domain]  Cd Length: 467  Bit Score: 62.41  E-value: 3.66e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564395690 291 KPYRCNLCGRSFRHSTSLTQHEVTHSGEKPFQC--KECGKAFSRCSSLVQHERTHTGEKPFECSICGRAFGQSPSLYK-H 367
Cdd:COG5048   32 RPDSCPNCTDSFSRLEHLTRHIRSHTGEKPSQCsySGCDKSFSRPLELSRHLRTHHNNPSDLNSKSLPLSNSKASSSSlS 111

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564395690 368 MRIHKRSKPYQSNNFSIAFE---PNIPLTQGESVLTDVKSYHCIDCGKDFSHITDFTEHQRIHAGENSYDSEQALRQQSL 444
Cdd:COG5048  112 SSSSNSNDNNLLSSHSLPPSsrdPQLPDLLSISNLRNNPLPGNNSSSVNTPQSNSLHPPLPANSLSKDPSSNLSLLISSN 191

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564395690 445 SHPREKPYQCNVCGKAFKRSTSFIEHHRIHTGEKPYECNECGEAFSRLSSLTQHERTHTGEKPYECIDCGKAFSQSSSLI 524
Cdd:COG5048  192 VSTSIPSSSENSPLSSSYSIPSSSSDQNLENSSSSLPLTTNSQLSPKSLLSQSPSSLSSSDSSSSASESPRSSLPTASSQ 271

                        250       260       270       280       290       300       310
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 564395690 525 QHERTHTGE-------KPYECNECGRAFRKKTNLHDHQR--IHTGE--KPYACKE--CGKNFSRSSALTKHHRIHS 587
Cdd:COG5048  272 SSSPNESDSssekgfsLPIKSKQCNISFSRSSPLTRHLRsvNHSGEslKPFSCPYslCGKLFSRNDALKRHILLHT 347
COG5048 COG5048
FOG: Zn-finger [General function prediction only];
235-589 4.27e-09

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


Pssm-ID: 227381 [Multi-domain]  Cd Length: 467  Bit Score: 58.94  E-value: 4.27e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564395690 235 KPFECNVCGKAFRHSSSLGQHENAHTGEKPYQCSL--CGKAFQRSSSLVQHQRIHTGEKPYRCNLCGRSFRHSTS----- 307
Cdd:COG5048   32 RPDSCPNCTDSFSRLEHLTRHIRSHTGEKPSQCSYsgCDKSFSRPLELSRHLRTHHNNPSDLNSKSLPLSNSKASsssls 111

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564395690 308 -----------LTQHEVTHSGEKPFQCKEC-----------------------------------GKAFSRCSSLVQHER 341
Cdd:COG5048  112 ssssnsndnnlLSSHSLPPSSRDPQLPDLLsisnlrnnplpgnnsssvntpqsnslhpplpanslSKDPSSNLSLLISSN 191

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564395690 342 THTGEKPFECSICGRAFGQSPSLYKHMRIHKRSKPYQSNNFSIAFEPNIPLtqgESVLTDVKSYHCIDCGKDFSHITDFT 421
Cdd:COG5048  192 VSTSIPSSSENSPLSSSYSIPSSSSDQNLENSSSSLPLTTNSQLSPKSLLS---QSPSSLSSSDSSSSASESPRSSLPTA 268

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564395690 422 EHQRihAGENSYDSEQALRQQslshpreKPYQCNVCGKAFKRSTSFIEH--HRIHTGE--KPYECNE--CGEAFSRLSSL 495
Cdd:COG5048  269 SSQS--SSPNESDSSSEKGFS-------LPIKSKQCNISFSRSSPLTRHlrSVNHSGEslKPFSCPYslCGKLFSRNDAL 339

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564395690 496 TQHERTHTGEKPYECI--DCGKAFSQSS-----SLIQHERTHTGEKPYEC--NECGRAFRKKTNLHDHQRIHTGEKPYAC 566
Cdd:COG5048  340 KRHILLHTSISPAKEKllNSSSKFSPLLnneppQSLQQYKDLKNDKKSETlsNSCIRNFKRDSNLSLHIITHLSFRPYNC 419

                        410       420
                 ....*....|....*....|....*
gi 564395690 567 K--ECGKNFSRSSALTKHHRIHSRN 589
Cdd:COG5048  420 KnpPCSKSFNRHYNLIPHKKIHTNH 444
zf-H2C2_2 pfam13465
Zinc-finger double domain;
494-519 1.11e-04

Zinc-finger double domain;


Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 39.28  E-value: 1.11e-04
                          10        20
                  ....*....|....*....|....*.
gi 564395690  494 SLTQHERTHTGEKPYECIDCGKAFSQ 519
Cdd:pfam13465   1 NLKRHMRTHTGEKPYKCPECGKSFKS 26
COG5048 COG5048
FOG: Zn-finger [General function prediction only];
518-591 1.24e-04

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


Pssm-ID: 227381 [Multi-domain]  Cd Length: 467  Bit Score: 44.69  E-value: 1.24e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564395690 518 SQSSSLIQHERTHTGE----KPYECNECGRAFRKKTNLHDHQRIHTGEKPYAC--KECGKNFSRSSALTKHHRIHSRNKL 591
Cdd:COG5048   12 NNSVLSSTPKSTLKSLsnapRPDSCPNCTDSFSRLEHLTRHIRSHTGEKPSQCsySGCDKSFSRPLELSRHLRTHHNNPS 91
zf-H2C2_2 pfam13465
Zinc-finger double domain;
224-248 3.69e-04

Zinc-finger double domain;


Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 38.12  E-value: 3.69e-04
                          10        20
                  ....*....|....*....|....*
gi 564395690  224 LTEHQRIHTGEKPFECNVCGKAFRH 248
Cdd:pfam13465   2 LKRHMRTHTGEKPYKCPECGKSFKS 26
zf-H2C2_2 pfam13465
Zinc-finger double domain;
279-304 6.02e-04

Zinc-finger double domain;


Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 37.35  E-value: 6.02e-04
                          10        20
                  ....*....|....*....|....*.
gi 564395690  279 SLVQHQRIHTGEKPYRCNLCGRSFRH 304
Cdd:pfam13465   1 NLKRHMRTHTGEKPYKCPECGKSFKS 26
SUF4-like cd20908
N-terminal domain of Oryza sativa transcription factor SUPPRESSOR OF FRI 4 (OsSUF4), ...
 319-374 7.54e-04

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: 38.69  E-value: 7.54e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 564395690 319 KPFqCKECGKAFSRCSSLVQHERTHTgekpFECSICGRAFGQSPSLYKH-MRIHKRS 374
Cdd:cd20908    1 KPW-CYYCDREFDDEKILIQHQKAKH----FKCHICHKKLYTAGGLAVHcLQVHKET 52
zf-H2C2_2 pfam13465
Zinc-finger double domain;
522-545 8.41e-04

Zinc-finger double domain;


Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 36.97  E-value: 8.41e-04
                          10        20
                  ....*....|....*....|....
gi 564395690  522 SLIQHERTHTGEKPYECNECGRAF 545
Cdd:pfam13465   1 NLKRHMRTHTGEKPYKCPECGKSF 24
zf-H2C2_2 pfam13465
Zinc-finger double domain;
307-332 1.31e-03

Zinc-finger double domain;


Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 36.20  E-value: 1.31e-03
                          10        20
                  ....*....|....*....|....*.
gi 564395690  307 SLTQHEVTHSGEKPFQCKECGKAFSR 332
Cdd:pfam13465   1 NLKRHMRTHTGEKPYKCPECGKSFKS 26
zf-H2C2_2 pfam13465
Zinc-finger double domain;
335-358 1.32e-03

Zinc-finger double domain;


Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 36.20  E-value: 1.32e-03
                          10        20
                  ....*....|....*....|....
gi 564395690  335 SLVQHERTHTGEKPFECSICGRAF 358
Cdd:pfam13465   1 NLKRHMRTHTGEKPYKCPECGKSF 24
SFP1 COG5189
Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division ...
 233-316 1.73e-03

Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning];


Pssm-ID: 227516 [Multi-domain]  Cd Length: 423  Bit Score: 41.24  E-value: 1.73e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564395690 233 GEKPFECNV--CGKAFRHSSSLGQHE-NAHtgekpyqcslCGKAFQRSSSLVQHQRIHTGEKPYRCNLCGRSFRHSTSLT 309
Cdd:COG5189  346 DGKPYKCPVegCNKKYKNQNGLKYHMlHGH----------QNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLK 415


                 ....*..
gi 564395690 310 QHeVTHS 316
Cdd:COG5189  416 YH-RKHS 421
SFP1 COG5189
Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division ...
 504-587 3.04e-03

Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning];


Pssm-ID: 227516 [Multi-domain]  Cd Length: 423  Bit Score: 40.47  E-value: 3.04e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564395690 504 GEKPYEC--IDCGKAFSQSSSLIQHeRTHtgekpyecNECGRAFRKKTNLHDHQRIHTGEKPYACKECGKNFSRSSALtK 581
Cdd:COG5189  346 DGKPYKCpvEGCNKKYKNQNGLKYH-MLH--------GHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGL-K 415


                 ....*.
gi 564395690 582 HHRIHS 587
Cdd:COG5189  416 YHRKHS 421
zf-H2C2_2 pfam13465
Zinc-finger double domain;
469-491 3.46e-03

Zinc-finger double domain;


Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 35.04  E-value: 3.46e-03
                          10        20
                  ....*....|....*....|...
gi 564395690  469 EHHRIHTGEKPYECNECGEAFSR 491
Cdd:pfam13465   4 RHMRTHTGEKPYKCPECGKSFKS 26
zf-H2C2_2 pfam13465
Zinc-finger double domain;
550-575 3.49e-03

Zinc-finger double domain;


Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 35.04  E-value: 3.49e-03
                          10        20
                  ....*....|....*....|....*.
gi 564395690  550 NLHDHQRIHTGEKPYACKECGKNFSR 575
Cdd:pfam13465   1 NLKRHMRTHTGEKPYKCPECGKSFKS 26
zf-C2H2 pfam00096
Zinc finger, C2H2 type; The C2H2 zinc finger is the classical zinc finger domain. The two ...
 564-586 4.15e-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: 34.97  E-value: 4.15e-03
                          10        20
                  ....*....|....*....|...
gi 564395690  564 YACKECGKNFSRSSALTKHHRIH 586
Cdd:pfam00096   1 YKCPDCGKSFSRKSNLKRHLRTH 23
SUF4-like cd20908
N-terminal domain of Oryza sativa transcription factor SUPPRESSOR OF FRI 4 (OsSUF4), ...
 263-311 5.85e-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: 36.00  E-value: 5.85e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 564395690 263 KPYqCSLCGKAFQRSSSLVQHQRIHTgekpYRCNLCGRSFRHSTSLTQH 311
Cdd:cd20908    1 KPW-CYYCDREFDDEKILIQHQKAKH----FKCHICHKKLYTAGGLAVH 44
zf-C2H2 pfam00096
Zinc finger, C2H2 type; The C2H2 zinc finger is the classical zinc finger domain. The two ...
 321-343 7.40e-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: 34.20  E-value: 7.40e-03
                          10        20
                  ....*....|....*....|...
gi 564395690  321 FQCKECGKAFSRCSSLVQHERTH 343
Cdd:pfam00096   1 YKCPDCGKSFSRKSNLKRHLRTH 23
PHA00733 PHA00733
hypothetical protein
 264-311 9.51e-03

hypothetical protein


Pssm-ID: 177301  Cd Length: 128  Bit Score: 36.78  E-value: 9.51e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*...
gi 564395690 264 PYQCSLCGKAFQRSSSLVQHQRIHTGEKpyRCNLCGRSFRHSTSLTQH 311
Cdd:PHA00733  73 PYVCPLCLMPFSSSVSLKQHIRYTEHSK--VCPVCGKEFRNTDSTLDH 118
 
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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