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 | 462850118 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Chloridoideae; Eragrostideae; Eragrostidinae; Eragrostis
|
||||||||
Family | C2H2 | ||||||||
Protein Properties | Length: 249aa MW: 29150.6 Da PI: 10.3725 | ||||||||
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 | 18.7 | 4.8e-06 | 19 | 41 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C+ C+k F r nL+ H r H 462850118 19 FVCEVCNKGFQREQNLQLHRRGH 41 89*******************88 PP | |||||||
2 | zf-C2H2 | 18.7 | 4.8e-06 | 126 | 148 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C+ C+k F r nL+ H r H 462850118 126 FVCEVCNKGFQREQNLQLHRRGH 148 89*******************88 PP | |||||||
3 | zf-C2H2 | 14.5 | 0.0001 | 203 | 225 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k++ +s+ k H +t+ 462850118 203 WKCDKCNKRYAVQSDWKAHSKTC 225 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 | 2.8E-6 | 18 | 41 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SuperFamily | SSF57667 | 1.03E-9 | 18 | 41 | No hit | No description |
SMART | SM00355 | 0.0041 | 19 | 41 | IPR015880 | Zinc finger, C2H2-like |
PROSITE profile | PS50157 | 11.094 | 19 | 41 | IPR007087 | Zinc finger, C2H2 |
Pfam | PF12171 | 1.3E-5 | 19 | 41 | IPR022755 | Zinc finger, double-stranded RNA binding |
PROSITE pattern | PS00028 | 0 | 21 | 41 | IPR007087 | Zinc finger, C2H2 |
SuperFamily | SSF57667 | 1.03E-9 | 121 | 148 | No hit | No description |
Gene3D | G3DSA:3.30.160.60 | 2.8E-6 | 125 | 148 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SMART | SM00355 | 0.0041 | 126 | 148 | IPR015880 | Zinc finger, C2H2-like |
PROSITE profile | PS50157 | 11.094 | 126 | 148 | IPR007087 | Zinc finger, C2H2 |
Pfam | PF12171 | 1.3E-5 | 126 | 148 | IPR022755 | Zinc finger, double-stranded RNA binding |
PROSITE pattern | PS00028 | 0 | 128 | 148 | IPR007087 | Zinc finger, C2H2 |
SuperFamily | SSF57667 | 6.17E-5 | 190 | 224 | No hit | No description |
Gene3D | G3DSA:3.30.160.60 | 1.5E-5 | 191 | 224 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SMART | SM00355 | 110 | 203 | 223 | 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: 249 aa Download sequence Send to blast |
PDAEVIALSP RTLLATNRFV CEVCNKGFQR EQNLQLHRRG HNLPWKLKQK NPKEAQRRRV 60 YLCPEPSCVH HDPSRALGDL TGIKKHYCRK HGEKKWNSSV TIYDRSDPDA EVIALSPRTL 120 LATNRFVCEV CNKGFQREQN LQLHRRGHNL PWKLKQKNPK EAQRRRVYLC PEPSCVHHDP 180 SRALGDLTGI KKHYCRKHGE KKWKCDKCNK RYAVQSDWKA HSKTCGTREY RCDCGTLFSR 240 VRIRYMIGS |
3D Structure ? help Back to Top | ||||||
---|---|---|---|---|---|---|
PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
5b3h_C | 6e-21 | 199 | 240 | 3 | 44 | Zinc finger protein JACKDAW |
5b3h_F | 6e-21 | 199 | 240 | 3 | 44 | Zinc finger protein JACKDAW |
Search in ModeBase |
Functional Description ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Description | |||||
UniProt | Probable transcription factor. {ECO:0000305}. | |||||
UniProt | Transcription factor acting as a positive regulator of the starch synthase SS4. Controls chloroplast development and starch granule formation (PubMed:22898356). 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:22898356, ECO:0000269|PubMed:24821766}. | |||||
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}. |
Cis-element ? help Back to Top | |
---|---|
Source | Link |
PlantRegMap | 462850118 |
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 | - |
Annotation -- Nucleotide ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Hit ID | E-value | Description | |||
GenBank | AY754865 | 1e-149 | AY754865.1 Zea mays INDETERMINATE-related protein 7 mRNA, complete cds. |
Annotation -- Protein ? help Back to Top | |||||||
---|---|---|---|---|---|---|---|
Source | Hit ID | E-value | Description | ||||
Refseq | XP_015691544.1 | 1e-134 | PREDICTED: protein indeterminate-domain 13-like | ||||
Swissprot | Q8GYC1 | 2e-84 | IDD4_ARATH; Protein indeterminate-domain 4, chloroplastic | ||||
Swissprot | Q8RWX7 | 8e-85 | IDD6_ARATH; Protein indeterminate-domain 6, chloroplastic | ||||
Swissprot | Q9ZUL3 | 2e-84 | IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic | ||||
TrEMBL | A0A0E0M4D1 | 3e-92 | A0A0E0M4D1_ORYPU; Uncharacterized protein | ||||
STRING | OB08G30010.1 | 1e-92 | (Oryza brachyantha) | ||||
STRING | OPUNC09G17530.1 | 5e-93 | (Oryza punctata) |
Orthologous Group ? help Back to Top | |||
---|---|---|---|
Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Monocots | OGMP202 | 38 | 320 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Hit ID | E-value | Description | ||||
AT1G14580.2 | 3e-87 | C2H2-like zinc finger protein |
Publications ? help Back to Top | |||
---|---|---|---|
|