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 | Tp5g13600 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassicaceae incertae sedis; Schrenkiella
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Family | C2H2 | ||||||||
Protein Properties | Length: 1361aa MW: 152420 Da PI: 8.4 | ||||||||
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 | 10.7 | 0.0016 | 1244 | 1269 | 1 | 23 |
EEET..TTTEEESSHHHHHHHHHH.T CS zf-C2H2 1 ykCp..dCgksFsrksnLkrHirt.H 23 y+C C++sF++ +L H r+ + Tp5g13600 1244 YQCDmeGCTMSFNSEKQLSLHKRNiC 1269 99********************9877 PP | |||||||
2 | zf-C2H2 | 13.2 | 0.00028 | 1269 | 1291 | 3 | 23 |
ET..TTTEEESSHHHHHHHHHHT CS zf-C2H2 3 Cp..dCgksFsrksnLkrHirtH 23 Cp Cgk F ++ +L++H r+H Tp5g13600 1269 CPvkGCGKNFFSHKYLVQHRRVH 1291 9999*****************99 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
SMART | SM00545 | 4.4E-15 | 19 | 60 | IPR003349 | JmjN domain |
PROSITE profile | PS51183 | 13.772 | 20 | 61 | IPR003349 | JmjN domain |
Pfam | PF02375 | 1.5E-13 | 21 | 54 | IPR003349 | JmjN domain |
SMART | SM00558 | 2.8E-50 | 199 | 368 | IPR003347 | JmjC domain |
PROSITE profile | PS51184 | 32.824 | 202 | 368 | IPR003347 | JmjC domain |
SuperFamily | SSF51197 | 1.07E-25 | 217 | 385 | No hit | No description |
Pfam | PF02373 | 3.1E-37 | 232 | 351 | IPR003347 | JmjC domain |
SMART | SM00355 | 9.6 | 1244 | 1266 | IPR015880 | Zinc finger, C2H2-like |
PROSITE profile | PS50157 | 12.965 | 1267 | 1296 | IPR007087 | Zinc finger, C2H2 |
SMART | SM00355 | 0.016 | 1267 | 1291 | IPR015880 | Zinc finger, C2H2-like |
Gene3D | G3DSA:3.30.160.60 | 3.3E-6 | 1268 | 1295 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
PROSITE pattern | PS00028 | 0 | 1269 | 1291 | IPR007087 | Zinc finger, C2H2 |
SuperFamily | SSF57667 | 7.69E-10 | 1283 | 1325 | No hit | No description |
Gene3D | G3DSA:3.30.160.60 | 1.4E-8 | 1296 | 1320 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
PROSITE profile | PS50157 | 10.928 | 1297 | 1326 | IPR007087 | Zinc finger, C2H2 |
SMART | SM00355 | 0.0015 | 1297 | 1321 | IPR015880 | Zinc finger, C2H2-like |
PROSITE pattern | PS00028 | 0 | 1299 | 1321 | IPR007087 | Zinc finger, C2H2 |
SuperFamily | SSF57667 | 7.0E-8 | 1315 | 1349 | No hit | No description |
Gene3D | G3DSA:3.30.160.60 | 1.8E-8 | 1321 | 1350 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
PROSITE profile | PS50157 | 11.032 | 1327 | 1358 | IPR007087 | Zinc finger, C2H2 |
SMART | SM00355 | 2.4 | 1327 | 1353 | IPR015880 | Zinc finger, C2H2-like |
PROSITE pattern | PS00028 | 0 | 1329 | 1353 | IPR007087 | Zinc finger, C2H2 |
Gene Ontology ? help Back to Top | ||||||
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GO Term | GO Category | GO Description | ||||
GO:0040010 | Biological Process | positive regulation of growth rate | ||||
GO:0045815 | Biological Process | positive regulation of gene expression, epigenetic | ||||
GO:0005634 | Cellular Component | nucleus | ||||
GO:0003676 | Molecular Function | nucleic acid binding | ||||
GO:0046872 | Molecular Function | metal ion binding | ||||
GO:0071558 | Molecular Function | histone demethylase activity (H3-K27 specific) |
Sequence ? help Back to Top |
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Protein Sequence Length: 1361 aa Download sequence Send to blast |
MAVSEQSPDV LPWLKSLPVA PEFRPTPAEF QDPIAYIFKI EEEASRYGIC KILPPVPPPS 60 KKTAIYNLNR SLAERAAARV REGAGACDYD GAPTFATRQQ QIGFCPRKQR PVQRPVWQSG 120 ERYSFGEFEA KAKSFERNYL KKCGKKSQLS ALEIETLYWR ATVDKPFSVE YANDMPGSAF 180 IPLSLAAARR KEYGGDGGTV GETAWNMRAM ARAEGSLLKF MKEETPGVTS PMVYIAMMFS 240 WFAWHVEDHD LHSLNYLHMG AGKTWYGVPK DAAVAFEEVI RVHGYGEELN PLVTFSTLGE 300 KTTVMSPEVC VKAGIPCCRL VQNPGEFVVT FPRAYHSGFS HGFNCGEASN IATPEWLRVA 360 KDAAIRRAAI NYPPMVSHLQ LLYDYALALG SRVPASIHTK PRSSRLKDKK RSEGEKLTKE 420 LFVQNIIHNN ELLLSLGKGS PVALLPQSSS DISVCSDLRV GSHLSANEER PTQLKAEDLS 480 SDSVMIGLNN GVKDAVSVKE KFTSLCERNR NHLASKENET QGNSRDAEKW KNAGAVGLSD 540 QRLFSCVTCG ILSFGCVAIV QPKEAAARYL MSADCSFFND WTVGSRSSNL GQDARSPVVK 600 SHSQSTGKHD VGYLYNTPVQ TTNHSMKTGD QRTSTTSVTK ANKEDGALEL LASAYGNSSD 660 SEEEDHKGLD AIILEERKHN ENGASPYDAS SFGTDGNEEA ACGKGKGVAE RSNGGSPSIL 720 DIAFPFIPRF DDDSSRLHMF CLEHAAEVEQ QLSPIGGVNI ILLCHPEYPR IEAEGKIVAE 780 ELGVSHEWSN TEFRNVTRED EETIQAALAN VEAKAGNSDW AVKLGINLSY SAILSRSPLY 840 SKQMPYNSVI YKVFGRNSSA TSSPTKPQVS GKRSSRQRKY VVGKWCGKVW MSHQVHPFLL 900 QQDLEVEESE RSHLRLEDVT GRRSFPCNVS RDSTTMFGRK YSRKRKMRAK AVPRKQLTSF 960 KREDGVSDDT SEDHSYKQQW RASGNDDESY FETGNSVSGD SSNQMSDQQQ RKIIRRDKGV 1020 KEFESDDEVS DRSLGEEYAV RERAVSESSM ENSFQPYKQS MHRNALEDSV YGHNDDNIYR 1080 HPRGYPRSKR AKVFRNPVSY DSEENGVYQQ RGNIQASRIG GDYDSAEDSL EEQEFCSTRK 1140 RQTRSTAKRK VKTEIVQSPR DTRGRTLQQS GSKKKNQDLD YMEGPSTRLR VRNLKPSRGS 1200 SETKQKKTGK KGSGNASFSR VVSEEELEED EEEENEEEEC AAAYQCDMEG CTMSFNSEKQ 1260 LSLHKRNICP VKGCGKNFFS HKYLVQHRRV HSDDRPLKCP WKGCKMTFKW AWSRTEHIRV 1320 HTGARPYLCI EPGCGQTFRF VSDFSRHKRK TGHSAKKTKK S |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
6a57_A | 1e-74 | 1241 | 1360 | 20 | 139 | Lysine-specific demethylase REF6 |
6a58_A | 1e-74 | 1241 | 1360 | 20 | 139 | Lysine-specific demethylase REF6 |
6a59_A | 1e-74 | 1241 | 1360 | 20 | 139 | Lysine-specific demethylase REF6 |
6ip0_A | 1e-72 | 9 | 465 | 4 | 422 | Transcription factor jumonji (Jmj) family protein |
6ip4_A | 1e-72 | 9 | 465 | 4 | 422 | Arabidopsis JMJ13 |
Search in ModeBase |
Nucleic Localization Signal ? help Back to Top | |||
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No. | Start | End | Sequence |
1 | 941 | 946 | SRKRKM |
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 | Tp5g13600 |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_006404260.1 | 0.0 | lysine-specific demethylase REF6 | ||||
Refseq | XP_024013589.1 | 0.0 | lysine-specific demethylase REF6 | ||||
Swissprot | Q9STM3 | 0.0 | REF6_ARATH; Lysine-specific demethylase REF6 | ||||
TrEMBL | V4M0K3 | 0.0 | V4M0K3_EUTSA; Uncharacterized protein | ||||
STRING | XP_006404260.1 | 0.0 | (Eutrema salsugineum) |
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 |