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 | Solyc04g028560.2.1 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum; Lycopersicon
|
||||||||
Family | C2H2 | ||||||||
Protein Properties | Length: 778aa MW: 87641.4 Da PI: 7.406 | ||||||||
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 | 11.5 | 0.00093 | 686 | 709 | 2 | 23 |
EET..TTTEEESSHHHHHHHHHHT CS zf-C2H2 2 kCp..dCgksFsrksnLkrHirtH 23 +Cp C k F+++ + ++H+r+H Solyc04g028560.2.1 686 RCPveGCEKKFTSHKYAVVHQRVH 709 69999*****************99 PP |
Protein Features ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Database | Entry ID | E-value | Start | End | InterPro ID | Description |
SMART | SM00355 | 17 | 662 | 684 | IPR015880 | Zinc finger, C2H2-like |
SMART | SM00355 | 0.082 | 685 | 709 | IPR015880 | Zinc finger, C2H2-like |
SuperFamily | SSF57667 | 2.27E-5 | 685 | 722 | No hit | No description |
PROSITE profile | PS50157 | 11.323 | 685 | 714 | IPR007087 | Zinc finger, C2H2 |
Gene3D | G3DSA:3.30.160.60 | 1.7E-5 | 685 | 713 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
PROSITE pattern | PS00028 | 0 | 687 | 709 | IPR007087 | Zinc finger, C2H2 |
Gene3D | G3DSA:3.30.160.60 | 2.6E-9 | 714 | 739 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SMART | SM00355 | 0.0057 | 715 | 739 | IPR015880 | Zinc finger, C2H2-like |
PROSITE profile | PS50157 | 11.365 | 715 | 744 | IPR007087 | Zinc finger, C2H2 |
PROSITE pattern | PS00028 | 0 | 717 | 739 | IPR007087 | Zinc finger, C2H2 |
SuperFamily | SSF57667 | 6.17E-10 | 725 | 767 | No hit | No description |
Gene3D | G3DSA:3.30.160.60 | 4.2E-10 | 740 | 768 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SMART | SM00355 | 0.6 | 745 | 771 | IPR015880 | Zinc finger, C2H2-like |
PROSITE profile | PS50157 | 9.037 | 745 | 776 | IPR007087 | Zinc finger, C2H2 |
PROSITE pattern | PS00028 | 0 | 747 | 771 | IPR007087 | Zinc finger, C2H2 |
Gene Ontology ? help Back to Top | ||||||
---|---|---|---|---|---|---|
GO Term | GO Category | GO Description | ||||
GO:0045814 | Biological Process | negative regulation of gene expression, epigenetic | ||||
GO:0048579 | Biological Process | negative regulation of long-day photoperiodism, flowering | ||||
GO:0003676 | Molecular Function | nucleic acid binding | ||||
GO:0032452 | Molecular Function | histone demethylase activity | ||||
GO:0046872 | Molecular Function | metal ion binding |
Sequence ? help Back to Top |
---|
Protein Sequence Length: 778 aa Download sequence Send to blast |
MSNNCYSHVW EVLQIYQNDW TCLWNTEFPL HAVDRIQRNG VHSLNHDEVP LYAQPSESAV 60 SPHEGQTSQS HHLSHTDNAA PTSKVDLEEE CDVSRGLVRP QIFCLEHAIQ TEELLHSKGG 120 ANVLVICHSD FQKIRGHAAV VAEEIGTAFK YNEIPLANAS QGHLSLIDLA IGQEEQNKCA 180 EDWTLKLNIN LRHCVKVQRN CPLKKLKHAL ILGGLFSDTT HSSDSLSLLK WRSRKVRSKR 240 KLNHSTESTL FANVQIAKVV SGSTVDMQNV RKGNITIQYS RKKYKPKDCS SAQISRVFMD 300 PFNVPKEVSL ADAKILGSTR RLRDENAGTA SLEERFFNSS DGKPRLRYEH EMLLQNKDRN 360 GDLLAPQEQN LLVTPSLMVE FDEAQAELCT TEKFSLKDKT CDTNSNSCHT ENKTMAAETS 420 GETDIAHVHT PACTSIYVVQ STAYNENLEE NDMTETVIRD KSDHPTEEDF ERYHHSGDDK 480 AIMTRSPMPV NSSGSCIDGP SRSCDKKIED QDSQQFGLGG ETSDGETLLK SMEQEIQIHN 540 SVKDIVVCDH VTSSTKHSQS GDDISEQHTK ESNNDTTSAV LLWPTGKNGG CELDLLTDYG 600 CSVSGFVRSP CEGLRPRVKK NVRGSRVESK EFLEKKPIGN KVKRSLYSSI IPKDKKEEKG 660 SHRCNLEGCW MSFQTKVELQ LHKQNRCPVE GCEKKFTSHK YAVVHQRVHK NDRPLKCPWK 720 GCTMTFKWAW ARTEHFRVHT GERPYKCKVE GCGLTFRFVS GYSRHRRKTG HYVDAAN* |
3D Structure ? help Back to Top | ||||||
---|---|---|---|---|---|---|
PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
6a57_A | 4e-51 | 660 | 777 | 21 | 138 | Lysine-specific demethylase REF6 |
6a58_A | 4e-51 | 660 | 777 | 21 | 138 | Lysine-specific demethylase REF6 |
6a59_A | 4e-51 | 660 | 777 | 21 | 138 | Lysine-specific demethylase REF6 |
Search in ModeBase |
Expression -- Description ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Description | |||||
Uniprot | TISSUE SPECIFICITY: Expressed at low levels in cotyledons and leaves. Detected in inflorescences, stems, roots and siliques but not in shoot apical meristems or root tips. {ECO:0000269|PubMed:15377760, ECO:0000269|PubMed:18713399}. |
Functional Description ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Description | |||||
UniProt | Acts probably as a histone 'Lys-4' (H3K4me) demethylase. Involved in transcriptional gene regulation. Acts as a repressor of the photoperiodic flowering pathway and of FT. Binds around the transcription start site of the FT locus. {ECO:0000269|PubMed:15377760, ECO:0000269|PubMed:18467490, ECO:0000269|PubMed:19946624}. |
Cis-element ? help Back to Top | |
---|---|
Source | Link |
PlantRegMap | Solyc04g028560.2.1 |
Regulation -- PlantRegMap ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Upstream Regulator | Target Gene | ||||
PlantRegMap | Retrieve | - |
Annotation -- Protein ? help Back to Top | |||||||
---|---|---|---|---|---|---|---|
Source | Hit ID | E-value | Description | ||||
Refseq | XP_010319604.1 | 0.0 | probable lysine-specific demethylase ELF6 | ||||
Swissprot | Q6BDA0 | 2e-57 | ELF6_ARATH; Probable lysine-specific demethylase ELF6 | ||||
TrEMBL | A0A3Q7GUK7 | 0.0 | A0A3Q7GUK7_SOLLC; Uncharacterized protein | ||||
STRING | Solyc04g028560.2.1 | 0.0 | (Solanum lycopersicum) |
Orthologous Group ? help Back to Top | |||
---|---|---|---|
Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Asterids | OGEA4835 | 17 | 21 | Representative plant | OGRP11981 | 5 | 6 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Hit ID | E-value | Description | ||||
AT5G04240.1 | 7e-60 | C2H2 family protein |
Link Out ? help Back to Top | |
---|---|
Phytozome | Solyc04g028560.2.1 |
Publications ? help Back to Top | |||
---|---|---|---|
|