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 | KN539313.1_FGP006 | ||||||||
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
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Family | C2H2 | ||||||||
Protein Properties | Length: 492aa MW: 54342.8 Da PI: 7.6096 | ||||||||
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 | 15.3 | 5.8e-05 | 66 | 88 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 y C+ C+k F r nL+ H r H KN539313.1_FGP006 66 YICEVCHKGFQRDQNLQLHRRGH 88 89*******************88 PP | |||||||
2 | zf-C2H2 | 10.9 | 0.0014 | 142 | 164 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC C+k + +s+ k H + + KN539313.1_FGP006 142 WKCDRCSKKYAVQSDWKAHTKIC 164 58*****************9987 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 | 2.5E-5 | 65 | 88 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SuperFamily | SSF57667 | 1.28E-6 | 65 | 88 | No hit | No description |
SMART | SM00355 | 0.038 | 66 | 88 | IPR015880 | Zinc finger, C2H2-like |
PROSITE profile | PS50157 | 10.741 | 66 | 88 | IPR007087 | Zinc finger, C2H2 |
PROSITE pattern | PS00028 | 0 | 68 | 88 | IPR007087 | Zinc finger, C2H2 |
SMART | SM00355 | 52 | 107 | 137 | IPR015880 | Zinc finger, C2H2-like |
Gene3D | G3DSA:3.30.160.60 | 1.2E-4 | 130 | 163 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SuperFamily | SSF57667 | 1.28E-6 | 137 | 162 | No hit | No description |
SMART | SM00355 | 230 | 142 | 162 | 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 |
Sequence ? help Back to Top |
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Protein Sequence Length: 492 aa Download sequence Send to blast |
MSHTSEEESL NNLQQQPKLE ACAAGSSKGD TVMPVVKKRR GHPGNPDPDV EVVALSPKTL 60 LATNRYICEV CHKGFQRDQN LQLHRRGHNL PWKLKQRSST EAKKKVYVCP EITCPHHDAT 120 RALGDLTGIK KHYSRKHGEK KWKCDRCSKK YAVQSDWKAH TKICGTKEYR CDCGTIFSRK 180 DSFITHRAFC DALAEDTSRV NHSLATMVGS LHGQQQDMFS HGVPSFSSSP TDMITNLASN 240 DHNSDSHLRS LSPYALVTRN TALFSNQISP KESGFPLDGS VTSYPYMSMN SPYMSATALL 300 QKAAEMGAKT SQDPISPLLL KSFPNNLTSP RDHMNISSRS QGDSLGNSTV NSACMKTTED 360 ENSYMIGRGN ILINAPWSSG IMRPGTVPLI GLMNHPFSMR AEKDSPGIFP ENQTQHNRQD 420 NISGVVDADA GLTQDFLGLG GSGTLDMSSE TYNADVTALS YSDEQEKPQE HIYSYHQSSL 480 DPTALEKPIW DS |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
5b3h_C | 7e-33 | 138 | 201 | 3 | 66 | Zinc finger protein JACKDAW |
5b3h_F | 7e-33 | 138 | 201 | 3 | 66 | Zinc finger protein JACKDAW |
Search in ModeBase |
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}. |
Binding Motif ? help Back to Top | |||
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Motif ID | Method | Source | Motif file |
MP00256 | DAP | Transfer from AT2G02080 | Download |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | KN539313.1_FGP006 |
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 | Retrieve |
Annotation -- Nucleotide ? help Back to Top | ||||||
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Source | Hit ID | E-value | Description | |||
GenBank | CP012610 | 0.0 | CP012610.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 2 sequence. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_025879352.1 | 0.0 | protein indeterminate-domain 2-like | ||||
Swissprot | Q8GYC1 | 1e-102 | IDD4_ARATH; Protein indeterminate-domain 4, chloroplastic | ||||
TrEMBL | A0A0D9YSW5 | 0.0 | A0A0D9YSW5_9ORYZ; Uncharacterized protein | ||||
STRING | OGLUM02G18620.1 | 0.0 | (Oryza glumipatula) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Monocots | OGMP11425 | 32 | 40 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT3G50700.1 | 1e-105 | indeterminate(ID)-domain 2 |
Publications ? help Back to Top | |||
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