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 | Vradi05g05790.1 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Vigna
|
||||||||
Family | C2H2 | ||||||||
Protein Properties | Length: 1639aa MW: 184361 Da PI: 8.858 | ||||||||
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 | 10.9 | 0.0014 | 1522 | 1547 | 1 | 23 |
EEET..TTTEEESSHHHHHHHHHH.T CS zf-C2H2 1 ykCp..dCgksFsrksnLkrHirt.H 23 y+C C++sF +k +L +H r+ + Vradi05g05790.1 1522 YQCDmdGCSMSFGSKQELLHHKRNiC 1547 99********************9877 PP | |||||||
2 | zf-C2H2 | 12.8 | 0.00037 | 1547 | 1569 | 3 | 23 |
ET..TTTEEESSHHHHHHHHHHT CS zf-C2H2 3 Cp..dCgksFsrksnLkrHirtH 23 Cp Cgk F ++ +L++H r+H Vradi05g05790.1 1547 CPvkGCGKKFFSHKYLVQHRRVH 1569 9999*****************99 PP | |||||||
3 | zf-C2H2 | 11.7 | 0.00081 | 1605 | 1631 | 1 | 23 |
EEET..TTTEEESSHHHHHHHHHH..T CS zf-C2H2 1 ykCp..dCgksFsrksnLkrHirt..H 23 y+C Cg++F+ s++ rH r+ H Vradi05g05790.1 1605 YVCAepGCGQTFRFVSDFSRHKRKtgH 1631 899999****************99666 PP |
Protein Features ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Database | Entry ID | E-value | Start | End | InterPro ID | Description |
SMART | SM00545 | 2.2E-16 | 30 | 71 | IPR003349 | JmjN domain |
PROSITE profile | PS51183 | 14.603 | 31 | 72 | IPR003349 | JmjN domain |
Pfam | PF02375 | 3.7E-14 | 32 | 65 | IPR003349 | JmjN domain |
PROSITE profile | PS51184 | 33.744 | 192 | 361 | IPR003347 | JmjC domain |
SMART | SM00558 | 9.3E-49 | 192 | 361 | IPR003347 | JmjC domain |
SuperFamily | SSF51197 | 5.22E-26 | 192 | 379 | No hit | No description |
Pfam | PF02373 | 1.8E-35 | 225 | 344 | IPR003347 | JmjC domain |
SMART | SM00355 | 7.1 | 1522 | 1544 | IPR015880 | Zinc finger, C2H2-like |
PROSITE profile | PS50157 | 12.944 | 1545 | 1574 | IPR007087 | Zinc finger, C2H2 |
SMART | SM00355 | 0.0045 | 1545 | 1569 | IPR015880 | Zinc finger, C2H2-like |
Gene3D | G3DSA:3.30.160.60 | 2.4E-6 | 1546 | 1573 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
PROSITE pattern | PS00028 | 0 | 1547 | 1569 | IPR007087 | Zinc finger, C2H2 |
SuperFamily | SSF57667 | 2.31E-9 | 1561 | 1603 | No hit | No description |
Gene3D | G3DSA:3.30.160.60 | 1.2E-8 | 1574 | 1599 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SMART | SM00355 | 0.0014 | 1575 | 1599 | IPR015880 | Zinc finger, C2H2-like |
PROSITE profile | PS50157 | 10.741 | 1575 | 1604 | IPR007087 | Zinc finger, C2H2 |
PROSITE pattern | PS00028 | 0 | 1577 | 1599 | IPR007087 | Zinc finger, C2H2 |
SuperFamily | SSF57667 | 4.19E-8 | 1593 | 1627 | No hit | No description |
Gene3D | G3DSA:3.30.160.60 | 2.5E-9 | 1600 | 1628 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SMART | SM00355 | 0.62 | 1605 | 1631 | IPR015880 | Zinc finger, C2H2-like |
PROSITE profile | PS50157 | 11.468 | 1605 | 1636 | IPR007087 | Zinc finger, C2H2 |
PROSITE pattern | PS00028 | 0 | 1607 | 1631 | IPR007087 | Zinc finger, C2H2 |
Gene Ontology ? help Back to Top | ||||||
---|---|---|---|---|---|---|
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 |
---|
Protein Sequence Length: 1639 aa Download sequence Send to blast |
MRATEKKSGI MGGGSEGSAD VLPWLKSMPV APEYRPTAAE FQDPIGYIFK IEKEASKYGI 60 CKIIPPFPPS PKKTAIANLN RSLAVSGSTF TTRQQQIGFC PRRPRPVQRP VWQSGDHYTF 120 TEFEFKAKSF EKAYLKRHTR KGPSPGPGLT PLETETLFWK ATLDKPFSVE YANDMPGSAF 180 SPKCRHTGDP TSLADTPWNM RAVSRATGSL LRFMKEEIPG VTSPMVYVAM LFSWFAWHVE 240 DHDLHSLNYL HMGAGKTWYG VPRDAAVAFE EVVRVHGYGG EINPLVTFAI LGEKTTVMSP 300 EVFLSAGVPC CRLVQNAGEF VVTFPRAYHT GFSHGFNCGE AANIATPEWL RVAKDAAIRR 360 ASLNYPPMVS HFQLLYDLAL ALCSRIPASI SAEPRSSRLK DKKKGEGETV IKELFVQDVL 420 QNNDLLHILG KESAVVLLPR SSVDISVCSK LRVGSQQSIN VSNSEGMHSS KDFVSDDLVF 480 NRSHGIKQEK TFYSVKDKFS TMYERNRVSS FDVNGSLISS SSKPLQRDTE GGTSKEDGLS 540 DQRLFSCVTC GILSFSCVAI VQPRDPAARY LVSADCSFCN DWVVGSGVSN SKLTTAPEKA 600 IIPVPNMYTG SFSYGPIGVY WGPKGWMKKN VQDGMQDVSV QSSRYASSIE SEKGNTALAL 660 LASAYGNSSD SEEDQISVDG HETNVLTSAS ESLLSHTQDS HASPVAALDS GDNITLMSAS 720 CEGLMHRRFE GNLSHQSLDH SLKKQDYNIT SGVTFENMKT VPNSTSNCSQ DANDAERSLS 780 KMSMVPFDNK NASMVLQSDE DSSRMHVFCL EHAAEAEKQL RPIGGAHIFL LCHPDILNWL 840 RNKGTVAMKN ESVVMEVMSV YVQCKKSSSP NAKVKFNYPK IEAEAKVVAE DLGIDYTWKS 900 IAYRHASKED EERIQLALDS EEAIPGNGDW AVKLGINLFY SAHLSRSPLY SKQMPYNSVI 960 YCAFGCSSPA SSSEEPKVYQ RRVNRQKKVV AGKWCGKVWM SNQVHPLLAK RDSEDAEDEK 1020 ILLGWISPEE RIERSESTPK GETTSRKSGK KRKSTAENGR TRKGSYAKKN VVSYNSIEDK 1080 PNSQPRSVHR SKKARNVGRD RAALKGDTSA YNHRKPISKE TNFTESDAVS DDSLDDEDDH 1140 MQHGRNFDID NHVVSDDTGD CDSDWQQREE HSSKDDEDME RDAISEDSEG KHDKFISEED 1200 IISDDQMESC FQKRQRRTPK SRQAKYLTGK SIISNDQLEL KMQKQQRRNP QSRQAKYLDE 1260 EDIASDDQLE GHYRRYQRRN PKGRQAKCVV EEDEMSGDQL EDHCQKLQTS FSRKKQNKGI 1320 NREDKYVMSD DQLEDHFPKQ QRRIPKSRQN RYPDKEVMDD SAENNTRLLH RTPKRKQAKC 1380 MDEDDLNSDD EMEDDQKLRR TLRSKQSKPK TLQQMKQANS VHAKNQASRS IKRGSRVLVK 1440 SKTPQQIKPR NKQSTNSREF SLLVEDEEEG GPSTRLRKRA TKAQGTEGKL KEKQTKRKKV 1500 KNDSTAKVSV GHVKGKDEEA DYQCDMDGCS MSFGSKQELL HHKRNICPVK GCGKKFFSHK 1560 YLVQHRRVHE DERPLKCPWK GCKMTFKWAW ARTEHIRVHT GARPYVCAEP GCGQTFRFVS 1620 DFSRHKRKTG HSAKKSRQ* |
3D Structure ? help Back to Top | ||||||
---|---|---|---|---|---|---|
PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
6ip0_A | 2e-79 | 20 | 382 | 4 | 353 | Transcription factor jumonji (Jmj) family protein |
6ip4_A | 2e-79 | 20 | 382 | 4 | 353 | Arabidopsis JMJ13 |
Search in ModeBase |
Nucleic Localization Signal ? help Back to Top | |||
---|---|---|---|
No. | Start | End | Sequence |
1 | 1476 | 1498 | RKRATKAQGTEGKLKEKQTKRKK |
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}. |
Cis-element ? help Back to Top | |
---|---|
Source | Link |
PlantRegMap | Vradi05g05790.1 |
Regulation -- PlantRegMap ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Upstream Regulator | Target Gene | ||||
PlantRegMap | Retrieve | - |
Annotation -- Nucleotide ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Hit ID | E-value | Description | |||
GenBank | AP015035 | 0.0 | AP015035.1 Vigna angularis var. angularis DNA, chromosome 2, almost complete sequence, cultivar: Shumari. |
Annotation -- Protein ? help Back to Top | |||||||
---|---|---|---|---|---|---|---|
Source | Hit ID | E-value | Description | ||||
Refseq | XP_014501175.1 | 0.0 | lysine-specific demethylase JMJ705 | ||||
Swissprot | Q9STM3 | 0.0 | REF6_ARATH; Lysine-specific demethylase REF6 | ||||
TrEMBL | A0A1S3U579 | 0.0 | A0A1S3U579_VIGRR; lysine-specific demethylase JMJ705 | ||||
STRING | XP_007137965.1 | 0.0 | (Phaseolus vulgaris) |
Orthologous Group ? help Back to Top | |||
---|---|---|---|
Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Fabids | OGEF5648 | 32 | 50 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Hit ID | E-value | Description | ||||
AT3G48430.1 | 0.0 | relative of early flowering 6 |