PlantRegMap/PlantTFDB v5.0
Plant Transcription
Factor Database
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Transcription Factor Information
Basic Information? help Back to Top | |||||||||
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TF ID | Araha.17006s0007.1.p | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
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Family | C2H2 | ||||||||
Protein Properties | Length: 958aa MW: 107104 Da PI: 6.7057 | ||||||||
Description | C2H2 family protein | ||||||||
Gene Model |
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Signature Domain? help Back to Top | |||||||
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No. | Domain | Score | E-value | Start | End | HMM Start | HMM End |
1 | zf-C2H2 | 12.2 | 0.00054 | 840 | 865 | 1 | 23 |
EEET..TTTEEESSHHHHHHHHHH.T CS zf-C2H2 1 ykCp..dCgksFsrksnLkrHirt.H 23 y+C C++sF++ +L+ H r+ + Araha.17006s0007.1.p 840 YQCDmeGCTMSFRSEKQLTLHKRNiC 865 99********************9877 PP | |||||||
2 | zf-C2H2 | 15.6 | 4.5e-05 | 865 | 887 | 3 | 23 |
ET..TTTEEESSHHHHHHHHHHT CS zf-C2H2 3 Cp..dCgksFsrksnLkrHirtH 23 Cp Cgk F ++ +L++H+r+H Araha.17006s0007.1.p 865 CPvkGCGKNFFSHKYLVQHQRVH 887 9999*****************99 PP | |||||||
3 | zf-C2H2 | 12.5 | 0.00044 | 923 | 949 | 1 | 23 |
EEET..TTTEEESSHHHHHHHHHH..T CS zf-C2H2 1 ykCp..dCgksFsrksnLkrHirt..H 23 y+C Cg++F+ s++ rH r+ H Araha.17006s0007.1.p 923 YVCAepGCGQTFRFVSDFSRHKRKtgH 949 899999****************99666 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
PROSITE profile | PS51184 | 15.627 | 1 | 107 | IPR003347 | JmjC domain |
SMART | SM00558 | 0.0036 | 8 | 107 | IPR003347 | JmjC domain |
Pfam | PF02373 | 4.0E-17 | 35 | 90 | IPR003347 | JmjC domain |
SuperFamily | SSF51197 | 4.39E-10 | 37 | 126 | No hit | No description |
SMART | SM00355 | 7.7 | 840 | 862 | IPR015880 | Zinc finger, C2H2-like |
SMART | SM00355 | 0.01 | 863 | 887 | IPR015880 | Zinc finger, C2H2-like |
PROSITE profile | PS50157 | 13.173 | 863 | 892 | IPR007087 | Zinc finger, C2H2 |
Gene3D | G3DSA:3.30.160.60 | 7.8E-7 | 864 | 891 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
PROSITE pattern | PS00028 | 0 | 865 | 887 | IPR007087 | Zinc finger, C2H2 |
SuperFamily | SSF57667 | 1.47E-10 | 879 | 921 | No hit | No description |
Gene3D | G3DSA:3.30.160.60 | 3.5E-9 | 892 | 916 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
PROSITE profile | PS50157 | 11.24 | 893 | 922 | IPR007087 | Zinc finger, C2H2 |
SMART | SM00355 | 7.0E-4 | 893 | 917 | IPR015880 | Zinc finger, C2H2-like |
PROSITE pattern | PS00028 | 0 | 895 | 917 | IPR007087 | Zinc finger, C2H2 |
SuperFamily | SSF57667 | 2.02E-8 | 911 | 945 | No hit | No description |
Gene3D | G3DSA:3.30.160.60 | 1.2E-9 | 917 | 946 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SMART | SM00355 | 0.62 | 923 | 949 | IPR015880 | Zinc finger, C2H2-like |
PROSITE profile | PS50157 | 11.032 | 923 | 954 | IPR007087 | Zinc finger, C2H2 |
PROSITE pattern | PS00028 | 0 | 925 | 949 | IPR007087 | Zinc finger, C2H2 |
Gene Ontology ? help Back to Top | ||||||
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GO Term | GO Category | GO Description | ||||
GO:0003676 | Molecular Function | nucleic acid binding | ||||
GO:0046872 | Molecular Function | metal ion binding |
Sequence ? help Back to Top |
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Protein Sequence Length: 958 aa Download sequence Send to blast |
MEVVRVHGYG GELNPLVDQE EDVNDSIAVF SVTISTLGEK TTVMSPEVFV KAGIPCCRLV 60 QNPGEFVVTF PRAYHSGFSH GFNCGEASNI ATPEWLRVAK DAAIRRAAIN YPPMVSHLQL 120 LYDYALALGS RMPTSINTKP RSSRLKDKKR SEGERLTKKL FVQNIIHNNE LLSSLGKGSP 180 VALLPQSSSD LSVCSDLRIG SNLITNQEKP IQLKSEDLSS DSVMVGLNNG LKDTVSVKEK 240 FTSLCERNRN HLASSEKETQ ETLSDAERRK NDGAVALSDQ RLFSCVTCGV LSFDCVAIVQ 300 PTEAAARYLM SADCSFFNDW TVVSGSANLE STEKHDVDYF YNVPSQTTDH SMNTGDQKTS 360 TASLTTAHKK DGALSLLASA YGDSSDSEEE DHKVLNAILS EDRKYDQSGS CAYEASSFDT 420 DGKEEARDGR SSDSNRQRLV CRKETGVVEG SNATSTCSTL SWTTEHSRLS KGSNTSLPFV 480 PRSDDDSSRL HVFCLEHAAE VEQKLRPIGG IHLMLLCHPE AEAKIVAEEL VIDHEWNDTE 540 FRNVTREDEE TIQAALDNVE AKGGNSDWTV KLGINLSYSA ILSHSPLYSK QMPYNSVIYN 600 AFGRSSPAKS SPLKPEVFGR RSSRQRKYVV GKWCEFESDD EVSDRSLGEE YAVRERAVSE 660 SSTENSFQLH GHSIDENALE DSVYGHDDDK LYRHPKGLPR SKRTKVFRNP VSYDSEENDV 720 YQRRGNIQAS RIGGEYESEE DSLEELDFCS TRKRQTRSTA KRNVKTEIVQ GPRETNQEFD 780 SYMEGPSTRL RVRIPKPSRV SSETKPKKIG KKGSRNASFS RVATEEDVEE DEEGEECAAY 840 QCDMEGCTMS FRSEKQLTLH KRNICPVKGC GKNFFSHKYL VQHQRVHSDD RPLKCPWKGC 900 NMTFKWAWSR TEHIRVHTGA RPYVCAEPGC GQTFRFVSDF SRHKRKTGHS VKKTKKR* |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
6a57_A | 2e-79 | 837 | 957 | 20 | 140 | Lysine-specific demethylase REF6 |
6a58_A | 2e-79 | 837 | 957 | 20 | 140 | Lysine-specific demethylase REF6 |
6a59_A | 2e-79 | 837 | 957 | 20 | 140 | Lysine-specific demethylase REF6 |
Search in ModeBase |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Histone demethylase that demethylates 'Lys-27' (H3K27me) of histone H3. Demethylates both tri- (H3K27me3) and di-methylated (H3K27me2) H3K27me (PubMed:21642989, PubMed:27111035). Demethylates also H3K4me3/2 and H3K36me3/2 in an in vitro assay (PubMed:20711170). Involved in the transcriptional regulation of hundreds of genes regulating developmental patterning and responses to various stimuli (PubMed:18467490). Binds DNA via its four zinc fingers in a sequence-specific manner, 5'-CTCTGYTY-3', to promote the demethylation of H3K27me3 and the regulation of organ boundary formation (PubMed:27111034, PubMed:27111035). Involved in the regulation of flowering time by repressing FLOWERING LOCUS C (FLC) expression (PubMed:15377760). Interacts with the NF-Y complexe to regulate SOC1 (PubMed:25105952). Mediates the recruitment of BRM to its target loci (PubMed:27111034). {ECO:0000269|PubMed:15377760, ECO:0000269|PubMed:18467490, ECO:0000269|PubMed:20711170, ECO:0000269|PubMed:21642989, ECO:0000269|PubMed:25105952, ECO:0000269|PubMed:27111034, ECO:0000269|PubMed:27111035}. |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | Araha.17006s0007.1.p |
Regulation -- PlantRegMap ? help Back to Top | ||||||
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Source | Upstream Regulator | Target Gene | ||||
PlantRegMap | Retrieve | - |
Annotation -- Nucleotide ? help Back to Top | ||||||
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Source | Hit ID | E-value | Description | |||
GenBank | AY664499 | 0.0 | AY664499.1 Arabidopsis thaliana relative of early flowering 6 (REF6) mRNA, complete cds. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_020880349.1 | 0.0 | lysine-specific demethylase REF6 isoform X1 | ||||
Swissprot | Q9STM3 | 0.0 | REF6_ARATH; Lysine-specific demethylase REF6 | ||||
TrEMBL | D7LRW6 | 0.0 | D7LRW6_ARALL; Uncharacterized protein | ||||
STRING | scaffold_501791.1 | 0.0 | (Arabidopsis lyrata) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Malvids | OGEM5259 | 28 | 43 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT3G48430.1 | 0.0 | relative of early flowering 6 |
Link Out ? help Back to Top | |
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Phytozome | Araha.17006s0007.1.p |