![]() |
PlantRegMap/PlantTFDB v5.0
Plant Transcription
Factor Database
|
Home TFext BLAST Prediction Download Help About Links PlantRegMap |
Transcription Factor Information
Basic Information? help Back to Top | |||||||||
---|---|---|---|---|---|---|---|---|---|
TF ID | Gh_D07G0545 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium
|
||||||||
Family | C2H2 | ||||||||
Protein Properties | Length: 1588aa MW: 179903 Da PI: 8.7919 | ||||||||
Description | C2H2 family protein | ||||||||
Gene Model |
|
Signature Domain? help Back to Top | |||||||
---|---|---|---|---|---|---|---|
No. | Domain | Score | E-value | Start | End | HMM Start | HMM End |
1 | zf-C2H2 | 12.8 | 0.00035 | 1498 | 1520 | 3 | 23 |
ET..TTTEEESSHHHHHHHHHHT CS zf-C2H2 3 Cp..dCgksFsrksnLkrHirtH 23 Cp Cgk F ++ +L++H r+H Gh_D07G0545 1498 CPvkGCGKKFFSHKYLVQHRRVH 1520 9999*****************99 PP | |||||||
2 | zf-C2H2 | 12.4 | 0.00049 | 1556 | 1582 | 1 | 23 |
EEET..TTTEEESSHHHHHHHHHH..T CS zf-C2H2 1 ykCp..dCgksFsrksnLkrHirt..H 23 y+C+ Cg++F+ s++ rH r+ H Gh_D07G0545 1556 YVCGeeGCGQTFRFVSDFSRHKRKtgH 1582 99********************99666 PP |
Protein Features ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Database | Entry ID | E-value | Start | End | InterPro ID | Description |
SMART | SM00545 | 5.3E-15 | 24 | 65 | IPR003349 | JmjN domain |
PROSITE profile | PS51183 | 13.536 | 25 | 66 | IPR003349 | JmjN domain |
Pfam | PF02375 | 3.6E-14 | 26 | 59 | IPR003349 | JmjN domain |
SMART | SM00558 | 8.1E-48 | 200 | 369 | IPR003347 | JmjC domain |
PROSITE profile | PS51184 | 33.284 | 200 | 369 | IPR003347 | JmjC domain |
SuperFamily | SSF51197 | 5.22E-26 | 214 | 386 | No hit | No description |
Pfam | PF02373 | 6.4E-35 | 233 | 352 | IPR003347 | JmjC domain |
SMART | SM00355 | 7.9 | 1473 | 1495 | IPR015880 | Zinc finger, C2H2-like |
PROSITE profile | PS50157 | 12.362 | 1496 | 1525 | IPR007087 | Zinc finger, C2H2 |
SMART | SM00355 | 0.0045 | 1496 | 1520 | IPR015880 | Zinc finger, C2H2-like |
PROSITE pattern | PS00028 | 0 | 1498 | 1520 | IPR007087 | Zinc finger, C2H2 |
Gene3D | G3DSA:3.30.160.60 | 2.9E-5 | 1498 | 1524 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SuperFamily | SSF57667 | 2.92E-9 | 1512 | 1554 | No hit | No description |
Gene3D | G3DSA:3.30.160.60 | 3.7E-8 | 1525 | 1550 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SMART | SM00355 | 0.0014 | 1526 | 1550 | IPR015880 | Zinc finger, C2H2-like |
PROSITE profile | PS50157 | 10.741 | 1526 | 1555 | IPR007087 | Zinc finger, C2H2 |
PROSITE pattern | PS00028 | 0 | 1528 | 1550 | IPR007087 | Zinc finger, C2H2 |
SuperFamily | SSF57667 | 5.45E-8 | 1544 | 1578 | No hit | No description |
Gene3D | G3DSA:3.30.160.60 | 9.8E-9 | 1551 | 1579 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SMART | SM00355 | 0.76 | 1556 | 1582 | IPR015880 | Zinc finger, C2H2-like |
PROSITE profile | PS50157 | 11.323 | 1556 | 1587 | IPR007087 | Zinc finger, C2H2 |
PROSITE pattern | PS00028 | 0 | 1558 | 1582 | IPR007087 | Zinc finger, C2H2 |
Gene Ontology ? help Back to Top | ||||||
---|---|---|---|---|---|---|
GO Term | GO Category | GO Description | ||||
GO:0009741 | Biological Process | response to brassinosteroid | ||||
GO:0009826 | Biological Process | unidimensional cell growth | ||||
GO:0010228 | Biological Process | vegetative to reproductive phase transition of meristem | ||||
GO:0033169 | Biological Process | histone H3-K9 demethylation | ||||
GO:0035067 | Biological Process | negative regulation of histone acetylation | ||||
GO:0048366 | Biological Process | leaf development | ||||
GO:0005634 | Cellular Component | nucleus | ||||
GO:0003676 | Molecular Function | nucleic acid binding | ||||
GO:0046872 | Molecular Function | metal ion binding |
Sequence ? help Back to Top |
---|
Protein Sequence Length: 1588 aa Download sequence Send to blast |
MACSSHHSLE QSQEAFSWLK SMPLAPEYRP TLAEFQDPIA YIFKIEKEAS QYGICKIIPP 60 VPPASKKTAI GNLNRSLLVR AEANASSDLK PTPTFTTRQQ QIGFCPRKPR PVQKPVWQSG 120 EYYTFQEFEA KAKSFERNYL KKYSKKGTLS ALEVETLFWK ATVDKPAMVE YANDMPGSAF 180 VPLNPKKSSG GGREAGEGVT VGETPWNMRA VSRAKGSLLR FMKEEIPGVT SPMVYIAMLF 240 SWFAWHVEDH DLHSLNYLHM GAGKTWYGVP RDAAVAFEEV VRLDGYGGEF NPLVTFSTLG 300 EKTTVMSPEV FLHAGIPCCR LVQNAGEFVV TFPRAYHSGF SHGFNFGEAA NIATPEWLRV 360 ARDAAIRRAS INYPPMVSHF QLLYDLALEL CSRIPMSIGA KPKSSRLKDK RKSEGENLVK 420 ELFVQNLIQN NNLLHILGKG SSVVLLPKSS SDISLCSDLR CQSRINPRMS LSLYKDIIKS 480 SKDVGSDETV IGGNEEIKGI KGFYSVKGNF ASMYEGNRDS SFSGNDYSCR FPSQTSNTTR 540 ERDSAILGDA LPDQRLFSCV TCGILCFACV AVLQPTDQAA RYLMSADCSF FNDWTVGSGV 600 THDGFNAAHG DAITSEQNPC SRRMNKSAPN SLYDVSVQPV DSKFRMGDQS NQVLEDTEKR 660 GESSALGLLA STYGNSSDSE EDLPEPNATI FHDETNPTNV SPERKIQYND SGFSPSDVNT 720 SRNPSLSRLD SEEESPFDIK NGSPETFDPD LEFKTDNLIS RRSNGLEDKF RDPMTSSHVN 780 PNYSRAAHGI EKMRFSMAVL PMENVDIPFV QRMDEDSSRM HVFCLEHAVE VEQQLRQIGG 840 VQVFLLCHPE YPKIEAEAKL VAEELGIDYP WNDILFGDAT KDDKERIQSA LDSEDAIPGN 900 GDWAVKLGIN LFYSANLSRS TLYSKQMPYN WIIYSAFGRN SSDSSPKKLN VYGRRSGKPR 960 KVVVGKWCGK VWMSNQVHPF LAQRDSEEQE QERSFHAQAI SDENVERKPE NVPKAETMKV 1020 VNRKRKSRAE ITLNKKVKRV ESEGAVSDDS LDGSSLRQQQ IVFRGKKPRL VEKEEAVSCD 1080 LLEDDSLLRH WNLSRNRRAK FIERENAESE DAEEDFTHQQ QRSNLRGRHH KYIEEDDEIS 1140 GDLLNESSLK QYRRTPRSLQ AKFLDGENGV SDDEQEEISH KLHRRIPRGK QIKSSKRNTA 1200 VSDDSLKQYR RMRKGKQTKV FERDDAMSDY ASDDDSQYQI RRIPRGKQMK CMERYDAFSD 1260 DSVEDNSQQQ HRRILSSKAA KFTERRRVHR SQLTEFIETE DAVSSDSPDD NSSLRQPRRI 1320 PRSKQPEILE REDAISDDSL DGSHQSNRSL RNRKKKGPTL CQMKRETAQN VKQVKRRSTE 1380 QVISQHVKQE TPQNQNTKTK QTARHCSSSS DEDEIEGGPS TRLRKRTRKP LKQPETKPKE 1440 KKQAGKKKVK NALNSKTLSG QNSAKVRDEE VEYQCDMEGC SMSFGSKQAL ILHKRNICPV 1500 KGCGKKFFSH KYLVQHRRVH LDDRPLKCPW KGCKMTFKWA WARTEHIRVH TGARPYVCGE 1560 EGCGQTFRFV SDFSRHKRKT GHCGKKGR |
3D Structure ? help Back to Top | ||||||
---|---|---|---|---|---|---|
PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
6ip0_A | 8e-75 | 18 | 390 | 8 | 353 | Transcription factor jumonji (Jmj) family protein |
6ip4_A | 8e-75 | 18 | 390 | 8 | 353 | Arabidopsis JMJ13 |
Search in ModeBase |
Expression -- Description ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Description | |||||
Uniprot | TISSUE SPECIFICITY: Highly expressed in the shoot apical meristem and primary and secondary root tips, and lower expression in cotyledons, leaves and root axis along vascular tissues. Detected in inflorescences, stems and siliques. {ECO:0000269|PubMed:15377760, ECO:0000269|PubMed:18713399}. |
Functional Description ? help Back to Top | ||||||
---|---|---|---|---|---|---|
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}. |
Binding Motif ? help Back to Top | |||
---|---|---|---|
Motif ID | Method | Source | Motif file |
MP00608 | ChIP-seq | Transfer from AT3G48430 | Download |
![]() |
Annotation -- Nucleotide ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Hit ID | E-value | Description | |||
GenBank | JX577634 | 5e-98 | JX577634.1 Gossypium hirsutum clone NBRI_GE9494 microsatellite sequence. |
Annotation -- Protein ? help Back to Top | |||||||
---|---|---|---|---|---|---|---|
Source | Hit ID | E-value | Description | ||||
Refseq | XP_012468557.1 | 0.0 | PREDICTED: lysine-specific demethylase JMJ705-like | ||||
Swissprot | Q9STM3 | 0.0 | REF6_ARATH; Lysine-specific demethylase REF6 | ||||
TrEMBL | A0A0D2LVF4 | 0.0 | A0A0D2LVF4_GOSRA; Uncharacterized protein | ||||
STRING | Gorai.001G061900.1 | 0.0 | (Gossypium raimondii) |
Orthologous Group ? help Back to Top | |||
---|---|---|---|
Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Malvids | OGEM5259 | 28 | 43 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Hit ID | E-value | Description | ||||
AT3G48430.1 | 0.0 | relative of early flowering 6 |