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 | Pavir.6KG404500.3.p | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Panicinae; Panicum
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Family | C2H2 | ||||||||
Protein Properties | Length: 533aa MW: 55088.6 Da PI: 9.3221 | ||||||||
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 | 17.4 | 1.3e-05 | 64 | 86 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C+ C+k F r nL+ H r H Pavir.6KG404500.3.p 64 FVCEVCNKGFQREQNLQLHRRGH 86 89*******************88 PP | |||||||
2 | zf-C2H2 | 13.2 | 0.00026 | 140 | 162 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k++ +s+ k H +t+ Pavir.6KG404500.3.p 140 WKCDKCNKRYAVQSDWKAHSKTC 162 58*****************9998 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
SuperFamily | SSF57667 | 1.83E-7 | 63 | 86 | No hit | No description |
Gene3D | G3DSA:3.30.160.60 | 7.2E-6 | 63 | 86 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SMART | SM00355 | 0.0041 | 64 | 86 | IPR015880 | Zinc finger, C2H2-like |
Pfam | PF12171 | 3.4E-5 | 64 | 86 | IPR022755 | Zinc finger, double-stranded RNA binding |
PROSITE profile | PS50157 | 11.094 | 64 | 86 | IPR007087 | Zinc finger, C2H2 |
PROSITE pattern | PS00028 | 0 | 66 | 86 | IPR007087 | Zinc finger, C2H2 |
Gene3D | G3DSA:3.30.160.60 | 3.9E-5 | 128 | 161 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SuperFamily | SSF57667 | 1.83E-7 | 135 | 160 | No hit | No description |
SMART | SM00355 | 110 | 140 | 160 | 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: 533 aa Download sequence Send to blast |
MAAAHLFGLG DAQTMQPPLP QQAAPPPPAA APALKKKRNQ PGNPNPDAEV IALSPKTLLA 60 TNRFVCEVCN KGFQREQNLQ LHRRGHNLPW KLKQKNPKET RRRVYLCPEP SCVHHDPSRA 120 LGDLTGIKKH YCRKHGEKKW KCDKCNKRYA VQSDWKAHSK TCGTREYRCD CGTLFSRRDS 180 FITHRAFCDA LAQESARAPP IGAGMYGSGG MALGLSGLAA SQLHSFQDQQ AHSSAATAIT 240 GNPAAQFEHL MPSSAGSPAF RGAQPASSSS SPFYLGGAED GHQSQPGHTS LLHGKPAFHG 300 LMQLPEQHGQ PGSNGLLNLG FFSGASSGQD ARLVFPDQFN GAAGGNGRGD GGEHGNSGAN 360 TESAAIFSGN NLMGNQMGVG GGGGFSSSLY NSTETVAPPQ MSATALLQKA AQMGATTSGA 420 GGGSVNSLLR GLGSGGALNG RPAGAAGFMA GESSSSRSTC QAENESQFRD LMNSLAASGS 480 GGFPGMDDGK LSTRDFLGVG GGVVRSMGGA VGLPLRHGAA GIGMGSLDPE MK* |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
5b3h_C | 4e-34 | 136 | 197 | 3 | 64 | Zinc finger protein JACKDAW |
5b3h_F | 4e-34 | 136 | 197 | 3 | 64 | Zinc finger protein JACKDAW |
Search in ModeBase |
Expression -- UniGene ? help Back to Top | ||||||
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UniGene ID | E-value | Expressed in | ||||
Pvr.4524 | 0.0 | callus| leaf| root| stem |
Expression -- Description ? help Back to Top | ||||||
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Source | Description | |||||
Uniprot | TISSUE SPECIFICITY: Highly expressed in leaf tissues. {ECO:0000305|PubMed:22898356}. |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
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}. |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | Pavir.6KG404500.3.p |
Regulation -- PlantRegMap ? help Back to Top | ||||||
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Source | Upstream Regulator | Target Gene | ||||
PlantRegMap | Retrieve | - |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_025821061.1 | 0.0 | protein indeterminate-domain 5, chloroplastic-like isoform X1 | ||||
Swissprot | Q9ZUL3 | 1e-123 | IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic | ||||
TrEMBL | A0A3L6PM37 | 0.0 | A0A3L6PM37_PANMI; INDETERMINATE-related protein 1 | ||||
STRING | Pavir.Fa00016.1.p | 0.0 | (Panicum virgatum) |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT1G14580.2 | 1e-113 | C2H2-like zinc finger protein |
Link Out ? help Back to Top | |
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Phytozome | Pavir.6KG404500.3.p |
Publications ? help Back to Top | |||
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