NCBI Conserved Domain Search

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

Pssm-ID: 227381 [Multi-domain] Cd Length: 467 Bit Score: 93.61 E-value: 6.70e-20

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462513364 486 DHQGLYLAEKPYKCDTCMKSFSRSSHFIAHQRIHTGEKPYKCL--ECGKNFSDRSNLNTHQRIHTGEKPYKCLECG---- 559
Cdd:COG5048    23 TLKSLSNAPRPDSCPNCTDSFSRLEHLTRHIRSHTGEKPSQCSysGCDKSFSRPLELSRHLRTHHNNPSDLNSKSLplsn 102

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462513364 560 --KSFSDHSNLITHQRIHTGEKPYKCGEcwKSFNQSSNLLkHQRIHLGGNPDQ-CSEPGGNFAQSPSFSA-HWRNSTeet 635
Cdd:COG5048   103 skASSSSLSSSSSNSNDNNLLSSHSLPP--SSRDPQLPDL-LSISNLRNNPLPgNNSSSVNTPQSNSLHPpLPANSL--- 176

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462513364 636 apeqPQSISKDLNSPGPHSTNSGEKLYECSECGRSFSKSSALISHQRIHTGEKPYECAECGKSFSKSSTLANHQRTHTGE 715
Cdd:COG5048   177 ----SKDPSSNLSLLISSNVSTSIPSSSENSPLSSSYSIPSSSSDQNLENSSSSLPLTTNSQLSPKSLLSQSPSSLSSSD 252

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462513364 716 KPYKCVDCGKCF--SERSKLITHQRVHTGE-----KPYKCLECGKFFRDRSNLITHQR--IHTGE--KPYKCRE--CGKC 782
Cdd:COG5048   253 SSSSASESPRSSlpTASSQSSSPNESDSSSekgfsLPIKSKQCNISFSRSSPLTRHLRsvNHSGEslKPFSCPYslCGKL 332

                         330       340       350
                  ....*....|....*....|....*....|....*.
gi 2462513364 783 FNQSSSLIIHQRIHTGEKPYKC--TECGKDFNNSSH 816
Cdd:COG5048   333 FSRNDALKRHILLHTSISPAKEklLNSSSKFSPLLN 368

Myb/SANT-like DNA-binding domain; This presumed domain appears to be related to other Myb/SANT-like DNA binding domains. In particular pfam10545 seems most related. This family is greatly expanded in plants and appears in several proteins annotated as transposon proteins.

Pssm-ID: 463994 Cd Length: 84 Bit Score: 77.69 E-value: 1.76e-17

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462513364 110 GVHWGYEETKTFLAILSEsPFSEKLRT-CHQNRQVYRAIAEQLRARGFLRTLEQCRYRVKNLLRNYRKAKSSH--PPGTC 186
Cdd:pfam13837   1 RNKWTEEETLALIEIWGE-RLELRFQEsKKRNKKLWEEIAEKMAELGYNRSPEQCKEKWENLKKKYRKEKEGNngSGSSW 79


                  ....*
gi 2462513364 187 PFYEE 191
Cdd:pfam13837  80 PFFEE 84

Myb/SANT-like DNA-binding domain; This presumed domain appears to be related to other Myb/SANT-like DNA binding domains. In particular pfam10545 seems most related. This family is greatly expanded in plants and appears in several proteins annotated as transposon proteins.

Pssm-ID: 463994 Cd Length: 84 Bit Score: 77.31 E-value: 2.81e-17

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462513364 270 GVHWGYEETKAFLAILSEsPFSEKLRT-CHQNSQVYRAIAERLCALGFLRTLEQCRYRFKNLLRSYRKAKSSH--PPGTC 346
Cdd:pfam13837   1 RNKWTEEETLALIEIWGE-RLELRFQEsKKRNKKLWEEIAEKMAELGYNRSPEQCKEKWENLKKKYRKEKEGNngSGSSW 79


                  ....*
gi 2462513364 347 PFYEE 351
Cdd:pfam13837  80 PFFEE 84

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

Pssm-ID: 227381 [Multi-domain] Cd Length: 467 Bit Score: 73.19 E-value: 2.38e-13

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462513364 523 KPYKCLECGKNFSDRSNLNTHQRIHTGEKPYKCL--ECGKSFSDHSNLITHQRIHTgekpykcgecwksfNQSSNLLKHQ 600
Cdd:COG5048    32 RPDSCPNCTDSFSRLEHLTRHIRSHTGEKPSQCSysGCDKSFSRPLELSRHLRTHH--------------NNPSDLNSKS 97

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462513364 601 RIHLGGNPDQCSEPGGNFaqspsfsahwrNSTEETAPEQ----PQSISKDLNSPGPHSTNSGEKLYECSECGRSFSKSSA 676
Cdd:COG5048    98 LPLSNSKASSSSLSSSSS-----------NSNDNNLLSShslpPSSRDPQLPDLLSISNLRNNPLPGNNSSSVNTPQSNS 166

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462513364 677 LIShqrihtgekPYECAECGKSFSKSSTLANHQRTHTGEKPYKCVDCGKCFSERSKLITHQRVHTGEKPYKCLECGKFFR 756
Cdd:COG5048   167 LHP---------PLPANSLSKDPSSNLSLLISSNVSTSIPSSSENSPLSSSYSIPSSSSDQNLENSSSSLPLTTNSQLSP 237

                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2462513364 757 DRSNLITHQRIHTGEKPYKCRECGKCFNQSSSLIIHQRIHTGE-------KPYKCTECGKDFNNSSHFSAHRRT 823
Cdd:COG5048   238 KSLLSQSPSSLSSSDSSSSASESPRSSLPTASSQSSSPNESDSssekgfsLPIKSKQCNISFSRSSPLTRHLRS 311

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

Pssm-ID: 227381 [Multi-domain] Cd Length: 467 Bit Score: 68.57 E-value: 6.76e-12

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462513364 475 SSSEEDLEKLIDHQGLYLAEKPYKC--DTCMKSFSRSSHFIAHQRIHTGEKPYKCL----------------ECGKNFS- 535
Cdd:COG5048    40 TDSFSRLEHLTRHIRSHTGEKPSQCsySGCDKSFSRPLELSRHLRTHHNNPSDLNSkslplsnskasssslsSSSSNSNd 119

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462513364 536 --------------DRSNLNTHQRIHTGEKPYKclECGKSF--SDHSNLITHQ--RIHTGEKPYKCGEC----WKSFNQS 593
Cdd:COG5048   120 nnllsshslppssrDPQLPDLLSISNLRNNPLP--GNNSSSvnTPQSNSLHPPlpANSLSKDPSSNLSLlissNVSTSIP 197

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462513364 594 SNLLKHQRIHLGGNPDQCSEPGGNFAQSPSFSAHWRNSTEETAPEQPQS--ISKDLNS----------PGPHSTNSGEKL 661
Cdd:COG5048   198 SSSENSPLSSSYSIPSSSSDQNLENSSSSLPLTTNSQLSPKSLLSQSPSslSSSDSSSsasesprsslPTASSQSSSPNE 277

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462513364 662 YE------------CSECGRSFSKSSALISHQR--IHTGE--KPYECAE--CGKSFSKSSTLANHQRTHTGEKPYKCVDC 723
Cdd:COG5048   278 SDsssekgfslpikSKQCNISFSRSSPLTRHLRsvNHSGEslKPFSCPYslCGKLFSRNDALKRHILLHTSISPAKEKLL 357

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462513364 724 GKCFSERSKLIT--HQRVH-----TGEKPYKCL--ECGKFFRDRSNLITHQRIHTGEKP--YKCRECGKCFNQSSSLIIH 792
Cdd:COG5048   358 NSSSKFSPLLNNepPQSLQqykdlKNDKKSETLsnSCIRNFKRDSNLSLHIITHLSFRPynCKNPPCSKSFNRHYNLIPH 437

                         410       420
                  ....*....|....*....|....*...
gi 2462513364 793 QRIHTgEKPYKCTECGKDFNNSSHFSAH 820
Cdd:COG5048   438 KKIHT-NHAPLLCSILKSFRRDLDLSNH 464

GT1, myb-like, SANT family; GT-1, a myb-like protein, is one of the GT trihelix transcription factors. GT-1 binds the GT cis-element of rbcS-3A, a light-induced gene, as a dimer. Arabidopsis GT-1 is a trans-activator and acts in the stabilization of components of the transcription pre-initiation complex comprised of TFIIA-TBP-TATA. The isolated GT-1 DNA-binding domain is sufficient to bind DNA. This region closely resembles the myb domain, but with longer helices. It has been proposed that GT-1 may respond to light signals via calcium-dependent phosphorylation to create a light-modulated molecular switch. These proteins are members of the SANT/myb group. SANT is named after 'SWI3, ADA2, N-CoR and TFIIIB', several factors that share this domain. The SANT domain resembles the 3 alpha-helix bundle of the DNA-binding Myb domains and is found in a diverse set of proteins.

Pssm-ID: 213402 Cd Length: 66 Bit Score: 48.05 E-value: 3.06e-07

                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2462513364 273 WGYEETKAFLAILSE--SPFSEKLRtchqNSQVYRAIAERLCALGFLRTLEQCRYRFKNLLRSYRKAK 338
Cdd:cd12203     3 WPREETLSLIRLRREmeSRFQETKS----KKALWEEIAAKMRELGYNRSAKQCKEKWENLNKYYKKVK 66

GT1, myb-like, SANT family; GT-1, a myb-like protein, is one of the GT trihelix transcription factors. GT-1 binds the GT cis-element of rbcS-3A, a light-induced gene, as a dimer. Arabidopsis GT-1 is a trans-activator and acts in the stabilization of components of the transcription pre-initiation complex comprised of TFIIA-TBP-TATA. The isolated GT-1 DNA-binding domain is sufficient to bind DNA. This region closely resembles the myb domain, but with longer helices. It has been proposed that GT-1 may respond to light signals via calcium-dependent phosphorylation to create a light-modulated molecular switch. These proteins are members of the SANT/myb group. SANT is named after 'SWI3, ADA2, N-CoR and TFIIIB', several factors that share this domain. The SANT domain resembles the 3 alpha-helix bundle of the DNA-binding Myb domains and is found in a diverse set of proteins.

Pssm-ID: 213402 Cd Length: 66 Bit Score: 45.73 E-value: 1.99e-06

                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2462513364 113 WGYEETKTFLAILSE--SPFSEKLRtchqNRQVYRAIAEQLRARGFLRTLEQCRYRVKNLLRNYRKAK 178
Cdd:cd12203     3 WPREETLSLIRLRREmeSRFQETKS----KKALWEEIAAKMRELGYNRSAKQCKEKWENLNKYYKKVK 66

Zinc-finger double domain;

Pssm-ID: 463886 [Multi-domain] Cd Length: 26 Bit Score: 43.51 E-value: 5.55e-06

                          10        20
                  ....*....|....*....|....*
gi 2462513364 539 NLNTHQRIHTGEKPYKCLECGKSFS 563
Cdd:pfam13465   1 NLKRHMRTHTGEKPYKCPECGKSFK 25

Zinc-finger double domain;

Pssm-ID: 463886 [Multi-domain] Cd Length: 26 Bit Score: 43.51 E-value: 5.83e-06

                          10        20
                  ....*....|....*....|....*.
gi 2462513364 760 NLITHQRIHTGEKPYKCRECGKCFNQ 785
Cdd:pfam13465   1 NLKRHMRTHTGEKPYKCPECGKSFKS 26

Zinc-finger double domain;

Pssm-ID: 463886 [Multi-domain] Cd Length: 26 Bit Score: 41.97 E-value: 1.87e-05

                          10        20
                  ....*....|....*....|....*.
gi 2462513364 676 ALISHQRIHTGEKPYECAECGKSFSK 701
Cdd:pfam13465   1 NLKRHMRTHTGEKPYKCPECGKSFKS 26

Zinc-finger double domain;

Pssm-ID: 463886 [Multi-domain] Cd Length: 26 Bit Score: 41.20 E-value: 3.54e-05

                          10        20
                  ....*....|....*....|....*.
gi 2462513364 788 SLIIHQRIHTGEKPYKCTECGKDFNN 813
Cdd:pfam13465   1 NLKRHMRTHTGEKPYKCPECGKSFKS 26

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: 8.20e-05

                          10        20
                  ....*....|....*....|...
gi 2462513364 553 YKCLECGKSFSDHSNLITHQRIH 575
Cdd:pfam00096   1 YKCPDCGKSFSRKSNLKRHLRTH 23

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

Pssm-ID: 227381 [Multi-domain] Cd Length: 467 Bit Score: 45.46 E-value: 1.09e-04

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462513364 466 NPSQEQWQESSSEedlekliDHQGLYLaekPYKCDTCMKSFSRSSHFIAHQR--IHTGE--KPYKCLE--CGKNFSDRSN 539
Cdd:COG5048   269 SSQSSSPNESDSS-------SEKGFSL---PIKSKQCNISFSRSSPLTRHLRsvNHSGEslKPFSCPYslCGKLFSRNDA 338

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462513364 540 LNTHQRIHTGEKP------------------------------------------------------------------- 552
Cdd:COG5048   339 LKRHILLHTSISPakekllnssskfspllnneppqslqqykdlkndkksetlsnscirnfkrdsnlslhiithlsfrpyn 418

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*..
gi 2462513364 553 YKCLECGKSFSDHSNLITHQRIHTGEKPYKCgECWKSFNQSSNLLKH 599
Cdd:COG5048   419 CKNPPCSKSFNRHYNLIPHKKIHTNHAPLLC-SILKSFRRDLDLSNH 464

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: 39.59 E-value: 1.29e-04

                          10        20
                  ....*....|....*....|...
gi 2462513364 525 YKCLECGKNFSDRSNLNTHQRIH 547
Cdd:pfam00096   1 YKCPDCGKSFSRKSNLKRHLRTH 23

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: 41.00 E-value: 1.43e-04

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 2462513364 744 KPYkCLECGKFFRDRSNLITHQRIHTgekpYKCRECGKCFNQSSSLIIH-QRIH 796
Cdd:cd20908     1 KPW-CYYCDREFDDEKILIQHQKAKH----FKCHICHKKLYTAGGLAVHcLQVH 49

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: 1.63e-04

                          10        20
                  ....*....|....*....|...
gi 2462513364 746 YKCLECGKFFRDRSNLITHQRIH 768
Cdd:pfam00096   1 YKCPDCGKSFSRKSNLKRHLRTH 23

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: 1.89e-04

                          10        20
                  ....*....|....*....|...
gi 2462513364 774 YKCRECGKCFNQSSSLIIHQRIH 796
Cdd:pfam00096   1 YKCPDCGKSFSRKSNLKRHLRTH 23

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: 40.62 E-value: 1.90e-04

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 2462513364 772 KPYkCRECGKCFNQSSSLIIHQRIHTgekpYKCTECGKDFNNSSHFSAH 820
Cdd:cd20908     1 KPW-CYYCDREFDDEKILIQHQKAKH----FKCHICHKKLYTAGGLAVH 44

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: 40.23 E-value: 2.63e-04

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 2462513364 551 KPYkCLECGKSFSDHSNLITHQRIHTgekpYKCGECWKSFNQSSNLLKH-QRIH 603
Cdd:cd20908     1 KPW-CYYCDREFDDEKILIQHQKAKH----FKCHICHKKLYTAGGLAVHcLQVH 49

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: 38.82 E-value: 2.71e-04

                          10        20
                  ....*....|....*....|...
gi 2462513364 581 YKCGECWKSFNQSSNLLKHQRIH 603
Cdd:pfam00096   1 YKCPDCGKSFSRKSNLKRHLRTH 23

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: 38.44 E-value: 3.11e-04

                          10        20
                  ....*....|....*....|...
gi 2462513364 690 YECAECGKSFSKSSTLANHQRTH 712
Cdd:pfam00096   1 YKCPDCGKSFSRKSNLKRHLRTH 23

Zinc-finger double domain;

Pssm-ID: 463886 [Multi-domain] Cd Length: 26 Bit Score: 38.12 E-value: 3.91e-04

                          10        20
                  ....*....|....*....|....*.
gi 2462513364 567 NLITHQRIHTGEKPYKCGECWKSFNQ 592
Cdd:pfam13465   1 NLKRHMRTHTGEKPYKCPECGKSFKS 26

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: 38.05 E-value: 4.13e-04

                          10        20
                  ....*....|....*....|...
gi 2462513364 802 YKCTECGKDFNNSSHFSAHRRTH 824
Cdd:pfam00096   1 YKCPDCGKSFSRKSNLKRHLRTH 23

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: 38.05 E-value: 4.56e-04

                          10        20
                  ....*....|....*....|...
gi 2462513364 662 YECSECGRSFSKSSALISHQRIH 684
Cdd:pfam00096   1 YKCPDCGKSFSRKSNLKRHLRTH 23

Zinc-finger double domain;

Pssm-ID: 463886 [Multi-domain] Cd Length: 26 Bit Score: 37.74 E-value: 5.25e-04

                          10        20
                  ....*....|....*....|...
gi 2462513364 733 LITHQRVHTGEKPYKCLECGKFF 755
Cdd:pfam13465   2 LKRHMRTHTGEKPYKCPECGKSF 24

Zinc-finger double domain;

Pssm-ID: 463886 [Multi-domain] Cd Length: 26 Bit Score: 37.74 E-value: 6.14e-04

                          10        20
                  ....*....|....*....|.
gi 2462513364 515 HQRIHTGEKPYKCLECGKNFS 535
Cdd:pfam13465   5 HMRTHTGEKPYKCPECGKSFK 25

Zinc-finger double domain;

Pssm-ID: 463886 [Multi-domain] Cd Length: 26 Bit Score: 37.74 E-value: 6.64e-04

                          10        20
                  ....*....|....*....|....
gi 2462513364 705 LANHQRTHTGEKPYKCVDCGKCFS 728
Cdd:pfam13465   2 LKRHMRTHTGEKPYKCPECGKSFK 25

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: 7.37e-04

                          10        20
                  ....*....|....*....|...
gi 2462513364 718 YKCVDCGKCFSERSKLITHQRVH 740
Cdd:pfam00096   1 YKCPDCGKSFSRKSNLKRHLRTH 23

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: 36.77 E-value: 4.21e-03

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 2462513364 664 CSECGRSFSKSSALISHQRIHTgekpYECAECGKSFSKSSTLANH 708
Cdd:cd20908     4 CYYCDREFDDEKILIQHQKAKH----FKCHICHKKLYTAGGLAVH 44

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: 5.96e-03

                          10        20
                  ....*....|....*....|...
gi 2462513364 497 YKCDTCMKSFSRSSHFIAHQRIH 519
Cdd:pfam00096   1 YKCPDCGKSFSRKSNLKRHLRTH 23

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: 36.38 E-value: 7.50e-03

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 2462513364 523 KPYkCLECGKNFSDRSNLNTHQRIHTgekpYKCLECGKSFSDHSNLITH-QRIH 575
Cdd:cd20908     1 KPW-CYYCDREFDDEKILIQHQKAKH----FKCHICHKKLYTAGGLAVHcLQVH 49