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 | XP_004515844.1 | ||||||||
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; Cicereae; Cicer
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Family | C2H2 | ||||||||
Protein Properties | Length: 1567aa MW: 177565 Da PI: 8.1359 | ||||||||
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 | 12.8 | 0.00036 | 1451 | 1476 | 1 | 23 |
EEET..TTTEEESSHHHHHHHHHH.T CS zf-C2H2 1 ykCp..dCgksFsrksnLkrHirt.H 23 y+C C++sF +k +L++H r+ + XP_004515844.1 1451 YQCDieGCTMSFGSKQELVHHKRNiC 1476 99********************9877 PP | |||||||
2 | zf-C2H2 | 12.8 | 0.00035 | 1476 | 1498 | 3 | 23 |
ET..TTTEEESSHHHHHHHHHHT CS zf-C2H2 3 Cp..dCgksFsrksnLkrHirtH 23 Cp Cgk F ++ +L++H r+H XP_004515844.1 1476 CPvkGCGKKFFSHKYLVQHRRVH 1498 9999*****************99 PP | |||||||
3 | zf-C2H2 | 11.8 | 0.00077 | 1534 | 1560 | 1 | 23 |
EEET..TTTEEESSHHHHHHHHHH..T CS zf-C2H2 1 ykCp..dCgksFsrksnLkrHirt..H 23 y+C Cg++F+ s++ rH r+ H XP_004515844.1 1534 YVCAepGCGQTFRFVSDFSRHKRKtgH 1560 899999****************99666 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
SMART | SM00545 | 3.0E-16 | 16 | 57 | IPR003349 | JmjN domain |
PROSITE profile | PS51183 | 14.118 | 17 | 58 | IPR003349 | JmjN domain |
Pfam | PF02375 | 2.7E-13 | 18 | 51 | IPR003349 | JmjN domain |
SMART | SM00558 | 1.7E-47 | 172 | 341 | IPR003347 | JmjC domain |
PROSITE profile | PS51184 | 32.784 | 172 | 341 | IPR003347 | JmjC domain |
SuperFamily | SSF51197 | 7.69E-26 | 188 | 339 | No hit | No description |
Pfam | PF02373 | 2.3E-36 | 205 | 324 | IPR003347 | JmjC domain |
Gene3D | G3DSA:3.30.160.60 | 2.7E-4 | 1445 | 1473 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SMART | SM00355 | 6.7 | 1451 | 1473 | IPR015880 | Zinc finger, C2H2-like |
SMART | SM00355 | 0.0045 | 1474 | 1498 | IPR015880 | Zinc finger, C2H2-like |
SuperFamily | SSF57667 | 6.72E-6 | 1474 | 1510 | No hit | No description |
PROSITE profile | PS50157 | 12.508 | 1474 | 1503 | IPR007087 | Zinc finger, C2H2 |
Gene3D | G3DSA:3.30.160.60 | 1.2E-5 | 1475 | 1502 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
PROSITE pattern | PS00028 | 0 | 1476 | 1498 | IPR007087 | Zinc finger, C2H2 |
Gene3D | G3DSA:3.30.160.60 | 2.5E-8 | 1503 | 1528 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SMART | SM00355 | 0.0036 | 1504 | 1528 | IPR015880 | Zinc finger, C2H2-like |
PROSITE profile | PS50157 | 10.824 | 1504 | 1533 | IPR007087 | Zinc finger, C2H2 |
PROSITE pattern | PS00028 | 0 | 1506 | 1528 | IPR007087 | Zinc finger, C2H2 |
SuperFamily | SSF57667 | 2.65E-9 | 1514 | 1558 | No hit | No description |
Gene3D | G3DSA:3.30.160.60 | 2.4E-9 | 1529 | 1557 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SMART | SM00355 | 0.62 | 1534 | 1560 | IPR015880 | Zinc finger, C2H2-like |
PROSITE profile | PS50157 | 11.032 | 1534 | 1565 | IPR007087 | Zinc finger, C2H2 |
PROSITE pattern | PS00028 | 0 | 1536 | 1560 | IPR007087 | Zinc finger, C2H2 |
Gene Ontology ? help Back to Top | ||||||
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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 |
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Protein Sequence Length: 1567 aa Download sequence Send to blast |
MANSEEVFPW LKSLPVAPEY RPSIAEFQDP IGYIFKIEKE ASKYGICKII PPVSPSSKKT 60 AISNMNRSQP RFTTRQQQIG FCPRKPQPVR RPVWHSGHHY SLREFEAKAK SFEKSYFKKG 120 KKLSQLSPLE IETIYWKVTA DKPFSVEYAN DMPGSAFGVL NDGGYGGDGV LTVGETGWNM 180 RGVSRANGSL LRFMKEEIPG VTSPMVYVAM LFSWFAWHVE DHDLHSLNYL HMGASKTWYG 240 VPRDAAVAFE DVVRVHGYGG EINPLVTFAI LGEKTTVMSP EVFVGAGIPC CRLVQNAGEF 300 VVTFPRAYHT GFSHGFNCAE AANIATPEWL KVAKDAAIRR ASINYPPMVS HSQLLYDLGL 360 ALCSRVSGGI SVGPRSSRLK DKKRKGVGET VIKELFARDV LHNNDLLHAL GKGASVVLLP 420 RSSSDDLSVC TKLRVGSQQL KLNTEFSLNV CNSEGSNSSK SFISDDLVFN RNHGIKKVKG 480 FSSVKEKFAT LCERNRVCSF GENGDTCTSS SKTLQRDIEN DTNQGDALSD QRLFSCVTCG 540 ILCFSCVAIV QPRQPAARYL MSADCSFFND SIVGSGVARN MFTVAHEDAY ISKQSTYTGW 600 TKQNARNDLY DVPVESVEQR TQIADQNYIE ASNIERKKGN TALALLASAY GNSSDSEDDQ 660 GDSDIAVDGN DLNTMKHPSE SKSQEKSCLP SHFQDCQASP VNSINNYEYY MHKKVERIMS 720 SFDYSVKSED YDVTSGVAFK NTREGFHPTL NCSEDTHTEM PLLSKTVIPI ENKTLVPPCD 780 EDSSRMHVFC LEHAAEAERQ LRPFGGAHIL LLCHADYPKI EAEAKFVAEE MGIDYEWKNT 840 VYRHAEREDE ERIQSALDSE EAIPGNGDWA VKLGINLFYS ANLSRSPLYS KQMPYNSLMY 900 YAFGRSSPVN LPIEPKVCQR RTKRQKKVVA GKWCGKVWKS NQIHPLLAKR ELEDVQDEKS 960 LHGWPLPDEK SEVSERTHKS NTTNRKSGRK RKMTIENEGA WEGSSAEGDW LTDYSIEDKC 1020 NRSQRRALAS KRTRHIERDS TASEGDSSPL KHHKKHTSKH TKCMESDIVS DDSPDDNTHI 1080 QQWRKSVAKE AKSIDCDMVS DDTMDHASDW PHSEELSHKQ DVSEDSLGVD SLQQHRKTPK 1140 SNFDQYISEE DVISDGQTEV HFQNQKWRIS KNGQHKYLSE EDAVISDDQL EHSMLKQQLR 1200 NPNSRKELDN YHVEEDIISE DELECHSRKY QRRTPKDKQA KHVIGEDVTC DDQLEDHFQK 1260 PRRSIRMRKK NRHSDEEVMD DSAENNSHVL HRTPKRKQAK CTDEDNINSD DRMEDDCHQQ 1320 HSRPLRSKQT KSQILQQMKQ SNSLCVRSKT SRPVKCGSHM LTKSKSPRLM KQQPRVWNSQ 1380 SGNSKDEMSQ IEDDEGGGPP STRLRKRFLK VQSESEGKTT ERETKKKKVK NAIAAKVSAV 1440 RAKMKDDEEE YQCDIEGCTM SFGSKQELVH HKRNICPVKG CGKKFFSHKY LVQHRRVHED 1500 DRPLKCPWKG CKMAFKWAWA RTEHIRVHTG ARPYVCAEPG CGQTFRFVSD FSRHKRKTGH 1560 SVKKTRS |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
6ip0_A | 1e-78 | 10 | 355 | 8 | 346 | Transcription factor jumonji (Jmj) family protein |
6ip4_A | 1e-78 | 10 | 355 | 8 | 346 | Arabidopsis JMJ13 |
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}. |
Binding Motif ? help Back to Top | |||
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Motif ID | Method | Source | Motif file |
MP00608 | ChIP-seq | Transfer from AT3G48430 | Download |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | XP_004515844.1 |
Regulation -- PlantRegMap ? help Back to Top | ||||||
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Source | Upstream Regulator | Target Gene | ||||
PlantRegMap | Retrieve | Retrieve |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_004515844.1 | 0.0 | lysine-specific demethylase REF6-like | ||||
Swissprot | Q9STM3 | 0.0 | REF6_ARATH; Lysine-specific demethylase REF6 | ||||
TrEMBL | A0A1S2Z6B7 | 0.0 | A0A1S2Z6B7_CICAR; lysine-specific demethylase REF6-like | ||||
STRING | XP_004515844.1 | 0.0 | (Cicer arietinum) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Fabids | OGEF5648 | 32 | 50 |
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 |