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 | Vang0004ss00640.1 | ||||||||
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; Phaseoleae; Vigna
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Family | C2H2 | ||||||||
Protein Properties | Length: 380aa MW: 41869.7 Da PI: 9.4304 | ||||||||
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 | 16.9 | 1.8e-05 | 56 | 78 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C+ C+k F r nL+ H r H Vang0004ss00640.1 56 FICEVCNKGFQREQNLQLHRRGH 78 89*******************88 PP | |||||||
2 | zf-C2H2 | 12.6 | 0.00042 | 132 | 154 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k + +s+ k H +t+ Vang0004ss00640.1 132 WKCDKCSKKYAVQSDWKAHSKTC 154 58*****************9998 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
Pfam | PF12171 | 1.3E-5 | 55 | 78 | IPR022755 | Zinc finger, double-stranded RNA binding |
SMART | SM00355 | 0.0052 | 56 | 78 | IPR015880 | Zinc finger, C2H2-like |
SuperFamily | SSF57667 | 7.37E-8 | 56 | 78 | No hit | No description |
Gene3D | G3DSA:3.30.160.60 | 8.7E-6 | 56 | 78 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
PROSITE profile | PS50157 | 10.99 | 56 | 78 | IPR007087 | Zinc finger, C2H2 |
PROSITE pattern | PS00028 | 0 | 58 | 78 | IPR007087 | Zinc finger, C2H2 |
SMART | SM00355 | 130 | 97 | 127 | IPR015880 | Zinc finger, C2H2-like |
Gene3D | G3DSA:3.30.160.60 | 4.2E-5 | 120 | 153 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SuperFamily | SSF57667 | 7.37E-8 | 127 | 152 | No hit | No description |
SMART | SM00355 | 150 | 132 | 152 | 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: 380 aa Download sequence Send to blast |
MAAPFSSASL FGIREEDQNQ MKQQHSSTTT PSSSSTPAAP PPQKKRRNQP GTPSKFICEV 60 CNKGFQREQN LQLHRRGHNL PWKLKQKSNK EPKRKVYLCP EPTCVHHDPS RALGDLTGIK 120 KHYSRKHGEK KWKCDKCSKK YAVQSDWKAH SKTCGTREYR CDCGTLFSRR DSFITHRAFC 180 DALAQESARE PPNLSSAIGN QLFGNSNNMS LGLSQNLGAQ IPSIHDQNSQ PSDLLRFCGA 240 PRTGHHTPNY SEEHHFNPTE ASNFFTEGTI IGIDHQTSSA TAPSLFSTTL QNTTNLSHMS 300 ATALLQKAAQ MGAASSSTNN SASSLLRSLA SKSDHRPLIS AANYSNILNS SECELDPFIN 360 VHLFGSSGAA YLEFLYRTS* |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
5b3h_C | 9e-36 | 128 | 189 | 3 | 64 | Zinc finger protein JACKDAW |
5b3h_F | 9e-36 | 128 | 189 | 3 | 64 | 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}. |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | Vang0004ss00640.1 |
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 | - |
Annotation -- Nucleotide ? help Back to Top | ||||||
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Source | Hit ID | E-value | Description | |||
GenBank | AP015043 | 0.0 | AP015043.1 Vigna angularis var. angularis DNA, chromosome 10, almost complete sequence, cultivar: Shumari. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_017426406.1 | 1e-169 | PREDICTED: protein indeterminate-domain 5, chloroplastic-like | ||||
Swissprot | Q8GYC1 | 1e-108 | IDD4_ARATH; Protein indeterminate-domain 4, chloroplastic | ||||
TrEMBL | A0A151R2I9 | 1e-175 | A0A151R2I9_CAJCA; Zinc finger protein JACKDAW | ||||
STRING | XP_007153119.1 | 1e-148 | (Phaseolus vulgaris) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Fabids | OGEF1536 | 33 | 97 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT2G02080.1 | 3e-93 | indeterminate(ID)-domain 4 |
Publications ? help Back to Top | |||
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