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PlantRegMap/PlantTFDB v5.0
Plant Transcription
Factor Database
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Home TFext BLAST Prediction Download Help About Links PlantRegMap |
Transcription Factor Information
Basic Information? help Back to Top | |||||||||
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TF ID | LOC_Os04g47860.3 | ||||||||
Common Name | Os04g0566400, OSNPB_040566400 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa
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Family | C2H2 | ||||||||
Protein Properties | Length: 583aa MW: 60738.9 Da PI: 9.7098 | ||||||||
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 | 17.2 | 1.4e-05 | 97 | 119 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C+ C+k F r nL+ H r H LOC_Os04g47860.3 97 FVCEVCNKGFQREQNLQLHRRGH 119 89*******************88 PP | |||||||
2 | zf-C2H2 | 11.6 | 0.00085 | 174 | 196 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k++ +s+ k H + + LOC_Os04g47860.3 174 WKCDKCSKRYAVQSDWKAHSKIC 196 58*****************9876 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
Gene3D | G3DSA:3.30.160.60 | 8.0E-6 | 96 | 119 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SuperFamily | SSF57667 | 1.32E-7 | 96 | 119 | No hit | No description |
PROSITE profile | PS50157 | 11.094 | 97 | 119 | IPR007087 | Zinc finger, C2H2 |
Pfam | PF12171 | 3.8E-5 | 97 | 119 | IPR022755 | Zinc finger, double-stranded RNA binding |
SMART | SM00355 | 0.0041 | 97 | 119 | IPR015880 | Zinc finger, C2H2-like |
PROSITE pattern | PS00028 | 0 | 99 | 119 | IPR007087 | Zinc finger, C2H2 |
Gene3D | G3DSA:3.30.160.60 | 3.9E-4 | 162 | 195 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SuperFamily | SSF57667 | 1.32E-7 | 169 | 194 | No hit | No description |
SMART | SM00355 | 140 | 174 | 194 | IPR015880 | Zinc finger, C2H2-like |
Gene Ontology ? help Back to Top | ||||||
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GO Term | GO Category | GO Description | ||||
GO:0003676 | Molecular Function | nucleic acid binding | ||||
GO:0046872 | Molecular Function | metal ion binding |
Plant Ontology ? help Back to Top | ||||||
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PO Term | PO Category | PO Description | ||||
PO:0020039 | anatomy | leaf lamina |
Sequence ? help Back to Top |
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Protein Sequence Length: 583 aa Download sequence Send to blast |
MASNSSAAAA AAFFGISRDG DQHDQIKPLI SHQQHQHQQQ QLAASLTGVA TAAPTAASSQ 60 GAPPAAPPAK KKRNLPADPD AEVIALSPKT LLATNRFVCE VCNKGFQREQ NLQLHRRGHN 120 LPWKLKQKNP AQAQRRRVYL CPEPTCVHHD PARALGDLTG IKKHFCRKHG EKKWKCDKCS 180 KRYAVQSDWK AHSKICGTRE YRCDCGTLFS RRDSFITHRA FCDALAQESS RLPPTSLSSL 240 TSHLYGASNA GNMALSLSQV GSHLTTSLQD GGGHHHHPSP ELLRLGGAGG GGGAGGGSSI 300 AARLDHLLSP SGASAFRPPQ PAFFLNAAAA AAATGQDFGD DAGNGQHSFL QAKPFHGLMQ 360 LPDLQGNGAG GPGAPGPNLF NLGFFANNGN SSGSSHEHAS QGLMSNDQFS CGAGGGGGLT 420 RRRRGSPAVT SLVATMFLLQ GSTTIKRRCC RRCRRPALLQ KAHMDQSDAH LNDLMNSLAG 480 GGVNAAAMFG GTNGGGVPGA GMFDPRLCDI EHEVKFSQGG GGGGGAGAGT GDGTRDFLGV 540 GGGGIVHGMS TPRGDHHQSS SDMSSLEAEM KSASSFNGRR MP* |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
5b3h_C | 5e-33 | 170 | 236 | 3 | 69 | Zinc finger protein JACKDAW |
5b3h_F | 5e-33 | 170 | 236 | 3 | 69 | Zinc finger protein JACKDAW |
Search in ModeBase |
Expression -- UniGene ? help Back to Top | ||||||
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UniGene ID | E-value | Expressed in | ||||
Os.52565 | 0.0 | callus| flower| leaf| panicle| root| seed| stem |
Expression -- Microarray ? help Back to Top | ||||||
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Source | ID | E-value | ||||
GEO | 37990346 | 0.0 | ||||
Expression Atlas | A0A0P0WDK4 | - |
Functional Description ? help Back to Top | ||||||
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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}. |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | LOC_Os04g47860.3 |
Regulation -- Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | INDUCTION: Down-regulated by gibberellin. {ECO:0000305|PubMed:17933900}. |
Regulation -- PlantRegMap ? help Back to Top | ||||||
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Source | Upstream Regulator | Target Gene | ||||
PlantRegMap | Retrieve | - |
Phenotype -- Mutation ? help Back to Top | ||||||
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Source | ID | |||||
RiceGE | Os04g47860 |
Annotation -- Nucleotide ? help Back to Top | ||||||
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Source | Hit ID | E-value | Description | |||
GenBank | AK120723 | 0.0 | AK120723.1 Oryza sativa Japonica Group cDNA clone:J023002I18, full insert sequence. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | NP_001338648.1 | 0.0 | uncharacterized protein LOC542199 | ||||
Refseq | XP_008668634.1 | 0.0 | uncharacterized protein LOC542199 isoform X1 | ||||
Refseq | XP_008668635.1 | 0.0 | uncharacterized protein LOC542199 isoform X1 | ||||
Swissprot | Q8GYC1 | 1e-106 | IDD4_ARATH; Protein indeterminate-domain 4, chloroplastic | ||||
TrEMBL | A0A0P0WDK4 | 0.0 | A0A0P0WDK4_ORYSJ; Os04g0566400 protein | ||||
STRING | OS04T0566400-02 | 0.0 | (Oryza sativa) |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT3G50700.1 | 1e-101 | indeterminate(ID)-domain 2 |
Link Out ? help Back to Top | |
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Phytozome | LOC_Os04g47860.3 |
Publications ? help Back to Top | |||
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