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Conserved domains on  [gi|1834199296|ref|NP_001260545|]
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hamlet, isoform H [Drosophila melanogaster]

Protein Classification

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List of domain hits

 Name Accession Description Interval E-value
SET super family cl40432
SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain superfamily; The Su(var)3-9, ...
 131-209 1.19e-17

SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain superfamily; The Su(var)3-9, Enhancer-of-zeste, Trithorax (SET) domain superfamily corresponds to SET domain-containing lysine methyltransferases, which catalyze site and state-specific methylation of lysine residues in histones that are fundamental in epigenetic regulation of gene activation and silencing in eukaryotic organisms. SET domains appear to be protein-protein interaction domains. It has been demonstrated that SET domains mediate interactions with a family of proteins that display similarity with dual-specificity phosphatases (dsPTPases). A subset of SET domains has been called PR domains. These domains are divergent in sequence from other SET domains, but also appear to mediate protein-protein interaction. The SET domain consists of two regions known as N-SET and C-SET. C-SET forms an unusual and conserved knot-like structure of probable functional importance. In addition to N-SET and C-SET, an insert region (I-SET) and flanking regions of high structural variability form part of the overall structure. Some family members contain a pre-SET domain, which is found in a number of histone methyltransferases (HMTase), and a post-SET domain, which harbors a zinc-binding site.


The actual alignment was detected with superfamily member cd19201:

Pssm-ID: 394802  Cd Length: 122  Bit Score: 80.08  E-value: 1.19e-17
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834199296  131 HILQEWVRRREPVCELdiRDSGGVYAKTPLQRGTRYGPFPMKLSHQPNDPQLAWK------------------------- 185
Cdd:cd19201      1 LSLPGELELRKPSQDA--GRSGGVWAKQPLPEGTRFGPYPGKLVKEPLDPSYEWKveaqgskggeglllltedsgtwlkl 78

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|....
gi 1834199296  186 --------------------LWYETNRYVNAGSEMVVDGRPKSP 209
Cdd:cd19201     79 vrsaddedeanlilyfkggqIWCEVTKDIPPGEELILVLREPLL 122
zf-H2C2_2 pfam13465
Zinc-finger double domain;
905-929 1.24e-05

Zinc-finger double domain;


:

Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 42.74  E-value: 1.24e-05
                           10        20
                   ....*....|....*....|....*
gi 1834199296  905 NLTRHLRTHTGEQPYPCKYCDRAFS 929
Cdd:pfam13465    1 NLKRHMRTHTGEKPYKCPECGKSFK 25
zf-C2H2 pfam00096
Zinc finger, C2H2 type; The C2H2 zinc finger is the classical zinc finger domain. The two ...
 891-913 3.43e-05

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: 41.52  E-value: 3.43e-05
                           10        20
                   ....*....|....*....|...
gi 1834199296  891 YSCKFCGKVFPRSANLTRHLRTH 913
Cdd:pfam00096    1 YKCPDCGKSFSRKSNLKRHLRTH 23
COG5048 COG5048
FOG: Zn-finger [General function prediction only];
891-984 6.09e-04

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


:

Pssm-ID: 227381 [Multi-domain]  Cd Length: 467  Bit Score: 43.53  E-value: 6.09e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834199296  891 YSCKFCGKVFPRSANLTRHLRTHTGEQPYPCKY--CDRAFSISSNLQRHVRNIHNKERpfrcELCDRSFGQQTNLDRHVK 968
Cdd:COG5048     34 DSCPNCTDSFSRLEHLTRHIRSHTGEKPSQCSYsgCDKSFSRPLELSRHLRTHHNNPS----DLNSKSLPLSNSKASSSS 109

                           90
                   ....*....|....*.
gi 1834199296  969 KHESEGNNFRDSPSSS 984
Cdd:COG5048    110 LSSSSSNSNDNNLLSS 125
PTZ00121 super family cl31754
MAEBL; Provisional
 597-684 1.77e-03

MAEBL; Provisional


The actual alignment was detected with superfamily member PTZ00121:

Pssm-ID: 173412 [Multi-domain]  Cd Length: 2084  Bit Score: 42.44  E-value: 1.77e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834199296  597 KGENSESQAYDKVTEKELVFKAEEKLKKEPLVQAFEGEE---DESRSSLDIKGKLEDTRNDSKSEEQDDMKQEPERVSTP 673
Cdd:PTZ00121  1458 KAEEAKKKAEEAKKADEAKKKAEEAKKADEAKKKAEEAKkkaDEAKKAAEAKKKADEAKKAEEAKKADEAKKAEEAKKAD 1537

                           90
                   ....*....|.
gi 1834199296  674 DQQQAEDDRKS 684
Cdd:PTZ00121  1538 EAKKAEEKKKA 1548
SUF4-like super family cl41227
N-terminal domain of Oryza sativa transcription factor SUPPRESSOR OF FRI 4 (OsSUF4), ...
 359-401 3.64e-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.


The actual alignment was detected with superfamily member cd20908:

Pssm-ID: 411020 [Multi-domain]  Cd Length: 82  Bit Score: 37.54  E-value: 3.64e-03
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|...
gi 1834199296  359 CSKVFCDPSNLQRHIRAYHVgaRCHpcpECGKTFGTSSGLKQH 401
Cdd:cd20908      7 CDREFDDEKILIQHQKAKHF--KCH---ICHKKLYTAGGLAVH 44
SFP1 super family cl25788
Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division ...
 347-435 4.49e-03

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


The actual alignment was detected with superfamily member COG5189:

Pssm-ID: 227516 [Multi-domain]  Cd Length: 423  Bit Score: 40.86  E-value: 4.49e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834199296  347 SHNNIRKYSCENCSKVFCDPSNLQRHIRA-----YHVGARCHPCP--ECGKTFGTSSGLKQHQ-HIHSSV---------- 408
Cdd:COG5189    309 EMIDVRKLPCTNSSSNGKLAHGGERNIDTpsrmlKVKDGKPYKCPveGCNKKYKNQNGLKYHMlHGHQNQklhenpspek 388

                           90       100       110
                   ....*....|....*....|....*....|....*
gi 1834199296  409 --------KPFACEVCSKAYTQFSNLCRHkRMHAT 435
Cdd:COG5189    389 mnifsakdKPYRCEVCDKRYKNLNGLKYH-RKHSH 422
 
Name Accession Description Interval E-value
PR-SET_ZFPM cd19201
PR-SET domain found in zinc finger protein ZFPM1, ZFPM2 and similar proteins; ZFPM1 (also ...
 131-209 1.19e-17

PR-SET domain found in zinc finger protein ZFPM1, ZFPM2 and similar proteins; ZFPM1 (also termed friend of GATA protein 1, FOG-1, friend of GATA 1, zinc finger protein 89A, or zinc finger protein multitype 1) functions as a transcription regulator that plays an essential role in erythroid and megakaryocytic cell differentiation. ZFPM2 (also termed friend of GATA protein 2, FOG-2, friend of GATA 2, zinc finger protein 89B, or zinc finger protein multitype 2) functions as a transcription regulator that plays a central role in heart morphogenesis and development of coronary vessels from epicardium, by regulating genes that are essential during cardiogenesis.


Pssm-ID: 380978  Cd Length: 122  Bit Score: 80.08  E-value: 1.19e-17
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834199296  131 HILQEWVRRREPVCELdiRDSGGVYAKTPLQRGTRYGPFPMKLSHQPNDPQLAWK------------------------- 185
Cdd:cd19201      1 LSLPGELELRKPSQDA--GRSGGVWAKQPLPEGTRFGPYPGKLVKEPLDPSYEWKveaqgskggeglllltedsgtwlkl 78

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|....
gi 1834199296  186 --------------------LWYETNRYVNAGSEMVVDGRPKSP 209
Cdd:cd19201     79 vrsaddedeanlilyfkggqIWCEVTKDIPPGEELILVLREPLL 122
zf-H2C2_2 pfam13465
Zinc-finger double domain;
905-929 1.24e-05

Zinc-finger double domain;


Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 42.74  E-value: 1.24e-05
                           10        20
                   ....*....|....*....|....*
gi 1834199296  905 NLTRHLRTHTGEQPYPCKYCDRAFS 929
Cdd:pfam13465    1 NLKRHMRTHTGEKPYKCPECGKSFK 25
zf-C2H2 pfam00096
Zinc finger, C2H2 type; The C2H2 zinc finger is the classical zinc finger domain. The two ...
 891-913 3.43e-05

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: 41.52  E-value: 3.43e-05
                           10        20
                   ....*....|....*....|...
gi 1834199296  891 YSCKFCGKVFPRSANLTRHLRTH 913
Cdd:pfam00096    1 YKCPDCGKSFSRKSNLKRHLRTH 23
COG5048 COG5048
FOG: Zn-finger [General function prediction only];
891-984 6.09e-04

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


Pssm-ID: 227381 [Multi-domain]  Cd Length: 467  Bit Score: 43.53  E-value: 6.09e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834199296  891 YSCKFCGKVFPRSANLTRHLRTHTGEQPYPCKY--CDRAFSISSNLQRHVRNIHNKERpfrcELCDRSFGQQTNLDRHVK 968
Cdd:COG5048     34 DSCPNCTDSFSRLEHLTRHIRSHTGEKPSQCSYsgCDKSFSRPLELSRHLRTHHNNPS----DLNSKSLPLSNSKASSSS 109

                           90
                   ....*....|....*.
gi 1834199296  969 KHESEGNNFRDSPSSS 984
Cdd:COG5048    110 LSSSSSNSNDNNLLSS 125
PTZ00121 PTZ00121
MAEBL; Provisional
 597-684 1.77e-03

MAEBL; Provisional


Pssm-ID: 173412 [Multi-domain]  Cd Length: 2084  Bit Score: 42.44  E-value: 1.77e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834199296  597 KGENSESQAYDKVTEKELVFKAEEKLKKEPLVQAFEGEE---DESRSSLDIKGKLEDTRNDSKSEEQDDMKQEPERVSTP 673
Cdd:PTZ00121  1458 KAEEAKKKAEEAKKADEAKKKAEEAKKADEAKKKAEEAKkkaDEAKKAAEAKKKADEAKKAEEAKKADEAKKAEEAKKAD 1537

                           90
                   ....*....|.
gi 1834199296  674 DQQQAEDDRKS 684
Cdd:PTZ00121  1538 EAKKAEEKKKA 1548
ZnF_C2H2 smart00355
zinc finger;
891-913 2.81e-03

zinc finger;


Pssm-ID: 197676  Cd Length: 23  Bit Score: 36.29  E-value: 2.81e-03
                            10        20
                    ....*....|....*....|...
gi 1834199296   891 YSCKFCGKVFPRSANLTRHLRTH 913
Cdd:smart00355    1 YRCPECGKVFKSKSALREHMRTH 23
SUF4-like cd20908
N-terminal domain of Oryza sativa transcription factor SUPPRESSOR OF FRI 4 (OsSUF4), ...
 359-401 3.64e-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: 37.54  E-value: 3.64e-03
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|...
gi 1834199296  359 CSKVFCDPSNLQRHIRAYHVgaRCHpcpECGKTFGTSSGLKQH 401
Cdd:cd20908      7 CDREFDDEKILIQHQKAKHF--KCH---ICHKKLYTAGGLAVH 44
zf-C2H2 pfam00096
Zinc finger, C2H2 type; The C2H2 zinc finger is the classical zinc finger domain. The two ...
 354-374 3.94e-03

Zinc finger, C2H2 type; The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger. #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C] Where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter.


Pssm-ID: 395048 [Multi-domain]  Cd Length: 23  Bit Score: 35.74  E-value: 3.94e-03
                           10        20
                   ....*....|....*....|.
gi 1834199296  354 YSCENCSKVFCDPSNLQRHIR 374
Cdd:pfam00096    1 YKCPDCGKSFSRKSNLKRHLR 21
SFP1 COG5189
Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division ...
 347-435 4.49e-03

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


Pssm-ID: 227516 [Multi-domain]  Cd Length: 423  Bit Score: 40.86  E-value: 4.49e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834199296  347 SHNNIRKYSCENCSKVFCDPSNLQRHIRA-----YHVGARCHPCP--ECGKTFGTSSGLKQHQ-HIHSSV---------- 408
Cdd:COG5189    309 EMIDVRKLPCTNSSSNGKLAHGGERNIDTpsrmlKVKDGKPYKCPveGCNKKYKNQNGLKYHMlHGHQNQklhenpspek 388

                           90       100       110
                   ....*....|....*....|....*....|....*
gi 1834199296  409 --------KPFACEVCSKAYTQFSNLCRHkRMHAT 435
Cdd:COG5189    389 mnifsakdKPYRCEVCDKRYKNLNGLKYH-RKHSH 422
zf-C2H2 pfam00096
Zinc finger, C2H2 type; The C2H2 zinc finger is the classical zinc finger domain. The two ...
 948-970 8.00e-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: 8.00e-03
                           10        20
                   ....*....|....*....|...
gi 1834199296  948 FRCELCDRSFGQQTNLDRHVKKH 970
Cdd:pfam00096    1 YKCPDCGKSFSRKSNLKRHLRTH 23
 
Name Accession Description Interval E-value
PR-SET_ZFPM cd19201
PR-SET domain found in zinc finger protein ZFPM1, ZFPM2 and similar proteins; ZFPM1 (also ...
 131-209 1.19e-17

PR-SET domain found in zinc finger protein ZFPM1, ZFPM2 and similar proteins; ZFPM1 (also termed friend of GATA protein 1, FOG-1, friend of GATA 1, zinc finger protein 89A, or zinc finger protein multitype 1) functions as a transcription regulator that plays an essential role in erythroid and megakaryocytic cell differentiation. ZFPM2 (also termed friend of GATA protein 2, FOG-2, friend of GATA 2, zinc finger protein 89B, or zinc finger protein multitype 2) functions as a transcription regulator that plays a central role in heart morphogenesis and development of coronary vessels from epicardium, by regulating genes that are essential during cardiogenesis.


Pssm-ID: 380978  Cd Length: 122  Bit Score: 80.08  E-value: 1.19e-17
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834199296  131 HILQEWVRRREPVCELdiRDSGGVYAKTPLQRGTRYGPFPMKLSHQPNDPQLAWK------------------------- 185
Cdd:cd19201      1 LSLPGELELRKPSQDA--GRSGGVWAKQPLPEGTRFGPYPGKLVKEPLDPSYEWKveaqgskggeglllltedsgtwlkl 78

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|....
gi 1834199296  186 --------------------LWYETNRYVNAGSEMVVDGRPKSP 209
Cdd:cd19201     79 vrsaddedeanlilyfkggqIWCEVTKDIPPGEELILVLREPLL 122
zf-H2C2_2 pfam13465
Zinc-finger double domain;
905-929 1.24e-05

Zinc-finger double domain;


Pssm-ID: 463886 [Multi-domain]  Cd Length: 26  Bit Score: 42.74  E-value: 1.24e-05
                           10        20
                   ....*....|....*....|....*
gi 1834199296  905 NLTRHLRTHTGEQPYPCKYCDRAFS 929
Cdd:pfam13465    1 NLKRHMRTHTGEKPYKCPECGKSFK 25
zf-C2H2 pfam00096
Zinc finger, C2H2 type; The C2H2 zinc finger is the classical zinc finger domain. The two ...
 891-913 3.43e-05

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: 41.52  E-value: 3.43e-05
                           10        20
                   ....*....|....*....|...
gi 1834199296  891 YSCKFCGKVFPRSANLTRHLRTH 913
Cdd:pfam00096    1 YKCPDCGKSFSRKSNLKRHLRTH 23
COG5048 COG5048
FOG: Zn-finger [General function prediction only];
891-984 6.09e-04

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


Pssm-ID: 227381 [Multi-domain]  Cd Length: 467  Bit Score: 43.53  E-value: 6.09e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834199296  891 YSCKFCGKVFPRSANLTRHLRTHTGEQPYPCKY--CDRAFSISSNLQRHVRNIHNKERpfrcELCDRSFGQQTNLDRHVK 968
Cdd:COG5048     34 DSCPNCTDSFSRLEHLTRHIRSHTGEKPSQCSYsgCDKSFSRPLELSRHLRTHHNNPS----DLNSKSLPLSNSKASSSS 109

                           90
                   ....*....|....*.
gi 1834199296  969 KHESEGNNFRDSPSSS 984
Cdd:COG5048    110 LSSSSSNSNDNNLLSS 125
PTZ00121 PTZ00121
MAEBL; Provisional
 597-684 1.77e-03

MAEBL; Provisional


Pssm-ID: 173412 [Multi-domain]  Cd Length: 2084  Bit Score: 42.44  E-value: 1.77e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834199296  597 KGENSESQAYDKVTEKELVFKAEEKLKKEPLVQAFEGEE---DESRSSLDIKGKLEDTRNDSKSEEQDDMKQEPERVSTP 673
Cdd:PTZ00121  1458 KAEEAKKKAEEAKKADEAKKKAEEAKKADEAKKKAEEAKkkaDEAKKAAEAKKKADEAKKAEEAKKADEAKKAEEAKKAD 1537

                           90
                   ....*....|.
gi 1834199296  674 DQQQAEDDRKS 684
Cdd:PTZ00121  1538 EAKKAEEKKKA 1548
ZnF_C2H2 smart00355
zinc finger;
891-913 2.81e-03

zinc finger;


Pssm-ID: 197676  Cd Length: 23  Bit Score: 36.29  E-value: 2.81e-03
                            10        20
                    ....*....|....*....|...
gi 1834199296   891 YSCKFCGKVFPRSANLTRHLRTH 913
Cdd:smart00355    1 YRCPECGKVFKSKSALREHMRTH 23
SUF4-like cd20908
N-terminal domain of Oryza sativa transcription factor SUPPRESSOR OF FRI 4 (OsSUF4), ...
 359-401 3.64e-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: 37.54  E-value: 3.64e-03
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|...
gi 1834199296  359 CSKVFCDPSNLQRHIRAYHVgaRCHpcpECGKTFGTSSGLKQH 401
Cdd:cd20908      7 CDREFDDEKILIQHQKAKHF--KCH---ICHKKLYTAGGLAVH 44
zf-C2H2 pfam00096
Zinc finger, C2H2 type; The C2H2 zinc finger is the classical zinc finger domain. The two ...
 354-374 3.94e-03

Zinc finger, C2H2 type; The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger. #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C] Where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter.


Pssm-ID: 395048 [Multi-domain]  Cd Length: 23  Bit Score: 35.74  E-value: 3.94e-03
                           10        20
                   ....*....|....*....|.
gi 1834199296  354 YSCENCSKVFCDPSNLQRHIR 374
Cdd:pfam00096    1 YKCPDCGKSFSRKSNLKRHLR 21
SFP1 COG5189
Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division ...
 347-435 4.49e-03

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


Pssm-ID: 227516 [Multi-domain]  Cd Length: 423  Bit Score: 40.86  E-value: 4.49e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834199296  347 SHNNIRKYSCENCSKVFCDPSNLQRHIRA-----YHVGARCHPCP--ECGKTFGTSSGLKQHQ-HIHSSV---------- 408
Cdd:COG5189    309 EMIDVRKLPCTNSSSNGKLAHGGERNIDTpsrmlKVKDGKPYKCPveGCNKKYKNQNGLKYHMlHGHQNQklhenpspek 388

                           90       100       110
                   ....*....|....*....|....*....|....*
gi 1834199296  409 --------KPFACEVCSKAYTQFSNLCRHkRMHAT 435
Cdd:COG5189    389 mnifsakdKPYRCEVCDKRYKNLNGLKYH-RKHSH 422
zf-C2H2 pfam00096
Zinc finger, C2H2 type; The C2H2 zinc finger is the classical zinc finger domain. The two ...
 948-970 8.00e-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: 8.00e-03
                           10        20
                   ....*....|....*....|...
gi 1834199296  948 FRCELCDRSFGQQTNLDRHVKKH 970
Cdd:pfam00096    1 YKCPDCGKSFSRKSNLKRHLRTH 23
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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