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 | XP_004496222.1 | ||||||||
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
|
||||||||
Family | C2H2 | ||||||||
Protein Properties | Length: 519aa MW: 57745.2 Da PI: 9.3082 | ||||||||
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 | 16.4 | 2.6e-05 | 78 | 100 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C+ C+k F r nL+ H r H XP_004496222.1 78 FICEVCNKGFQREQNLQLHRRGH 100 89*******************88 PP | |||||||
2 | zf-C2H2 | 12.7 | 0.00039 | 154 | 176 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k + +s+ k H +t+ XP_004496222.1 154 WKCEKCSKKYAVQSDWKAHSKTC 176 58*****************9998 PP |
Protein Features ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Database | Entry ID | E-value | Start | End | InterPro ID | Description |
Gene3D | G3DSA:3.30.160.60 | 5.7E-6 | 77 | 100 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SuperFamily | SSF57667 | 2.14E-7 | 77 | 100 | No hit | No description |
SMART | SM00355 | 0.0052 | 78 | 100 | IPR015880 | Zinc finger, C2H2-like |
PROSITE profile | PS50157 | 10.99 | 78 | 100 | IPR007087 | Zinc finger, C2H2 |
Pfam | PF12171 | 2.5E-5 | 78 | 100 | IPR022755 | Zinc finger, double-stranded RNA binding |
PROSITE pattern | PS00028 | 0 | 80 | 100 | IPR007087 | Zinc finger, C2H2 |
SMART | SM00355 | 130 | 119 | 149 | IPR015880 | Zinc finger, C2H2-like |
Gene3D | G3DSA:3.30.160.60 | 3.9E-5 | 142 | 175 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SuperFamily | SSF57667 | 2.14E-7 | 149 | 174 | No hit | No description |
SMART | SM00355 | 140 | 154 | 174 | IPR015880 | Zinc finger, C2H2-like |
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: 519 aa Download sequence Send to blast |
MAAASSSTSF LGIREENQSQ ITNLHHLHHH QSITTSATSS APPTTIPPKK RRNQPGTPNP 60 DAEVIALSPK TLMATNRFIC EVCNKGFQRE QNLQLHRRGH NLPWKLKQKS NKEPKRKVYL 120 CPEPTCVHHD PSRALGDLTG IKKHYSRKHG EKKWKCEKCS KKYAVQSDWK AHSKTCGTRE 180 YRCDCGTLFS RRDSFITHRA FCDALAQESS RHPNPFGTHL YGTNTNHMSL GLSQVGSQIS 240 QLQNQNQTSN TNNNILRLGS TQPKFEPLIS HSSLIGHSIP SSPFFMTDIP NQSSFEEQQF 300 SNKQLHGLMQ LPDLQGNTNN SSNIFNLMNI HEHHQFNNNI NTSNQGTTLY NINNNPLISD 360 HQLFVNSMQQ QESPHMSATA LLQKAAQIGS TSTNNKGTSL LRGMCTTSST NNINDDNHNI 420 NATFGRSSSM EENEHHNNEL HGLINSFANG NTSIFGNVQG NDKLTLDFLG VGGMVRNMSG 480 GFSSQSEQHG INTTSVVSLN ADVKLPHSNQ RFGSSNMMQ |
3D Structure ? help Back to Top | ||||||
---|---|---|---|---|---|---|
PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
5b3h_C | 9e-35 | 150 | 211 | 3 | 64 | Zinc finger protein JACKDAW |
5b3h_F | 9e-35 | 150 | 211 | 3 | 64 | Zinc finger protein JACKDAW |
Search in ModeBase |
Functional Description ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Description | |||||
UniProt | Transcription factor that may act a transcriptional activator of nuclear-encoded photosynthetic gene expression (Probable). Binds DNA via its zinc fingers (PubMed:24821766). Recognizes and binds to SCL3 promoter sequence 5'-AGACAA-3' to promotes its expression when in complex with RGA (PubMed:24821766). {ECO:0000269|PubMed:24821766, ECO:0000305|PubMed:19726569}. |
Binding Motif ? help Back to Top | |||
---|---|---|---|
Motif ID | Method | Source | Motif file |
MP00256 | DAP | Transfer from AT2G02080 | Download |
Cis-element ? help Back to Top | |
---|---|
Source | Link |
PlantRegMap | XP_004496222.1 |
Regulation -- Description ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Description | |||||
UniProt | INDUCTION: Down-regulated by gibberellin. {ECO:0000305|PubMed:17933900}. |
Regulation -- PlantRegMap ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Upstream Regulator | Target Gene | ||||
PlantRegMap | Retrieve | Retrieve |
Annotation -- Nucleotide ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Hit ID | E-value | Description | |||
GenBank | AP006423 | 1e-131 | AP006423.1 Lotus japonicus genomic DNA, chromosome 5, clone: LjT23C14, TM0311, complete sequence. |
Annotation -- Protein ? help Back to Top | |||||||
---|---|---|---|---|---|---|---|
Source | Hit ID | E-value | Description | ||||
Refseq | XP_004496222.1 | 0.0 | protein indeterminate-domain 4, chloroplastic-like isoform X1 | ||||
Refseq | XP_004496223.1 | 0.0 | protein indeterminate-domain 4, chloroplastic-like isoform X1 | ||||
Refseq | XP_027189666.1 | 0.0 | protein indeterminate-domain 4, chloroplastic-like isoform X1 | ||||
Swissprot | Q8GYC1 | 1e-142 | IDD4_ARATH; Protein indeterminate-domain 4, chloroplastic | ||||
TrEMBL | A0A1S2XZ70 | 0.0 | A0A1S2XZ70_CICAR; protein indeterminate-domain 4, chloroplastic-like isoform X1 | ||||
STRING | XP_004496222.1 | 0.0 | (Cicer arietinum) |
Orthologous Group ? help Back to Top | |||
---|---|---|---|
Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Fabids | OGEF1536 | 33 | 97 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Hit ID | E-value | Description | ||||
AT2G02080.1 | 1e-104 | indeterminate(ID)-domain 4 |
Publications ? help Back to Top | |||
---|---|---|---|
|