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.9NG846600.1.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: 432aa MW: 45021 Da PI: 9.8524 | ||||||||
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 | 21.3 | 7.3e-07 | 80 | 102 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 y+C++Cg+ F r nL+ H r+H Pavir.9NG846600.1.p 80 YVCEICGQGFQREQNLQMHRRRH 102 9*********************9 PP | |||||||
2 | zf-C2H2 | 10.8 | 0.0016 | 177 | 199 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C C k + +s++k H++t+ Pavir.9NG846600.1.p 177 WVCARCAKGYAVQSDYKAHLKTC 199 58*******************98 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 | 1.4E-5 | 79 | 102 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SuperFamily | SSF57667 | 4.41E-7 | 79 | 102 | No hit | No description |
PROSITE profile | PS50157 | 11.759 | 80 | 102 | IPR007087 | Zinc finger, C2H2 |
SMART | SM00355 | 6.5E-4 | 80 | 102 | IPR015880 | Zinc finger, C2H2-like |
PROSITE pattern | PS00028 | 0 | 82 | 102 | IPR007087 | Zinc finger, C2H2 |
SMART | SM00355 | 110 | 141 | 171 | IPR015880 | Zinc finger, C2H2-like |
SuperFamily | SSF57667 | 4.41E-7 | 172 | 197 | No hit | No description |
SMART | SM00355 | 270 | 177 | 204 | 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: 432 aa Download sequence Send to blast |
MALLVKSHHQ MLASSSTSSS SPSAFRQPAA AGPPPPPSSS CLTDQQPSPA KRKRRPPGTP 60 DPDAEVVALS PRTLLESDRY VCEICGQGFQ REQNLQMHRR RHKVPWRLVK RAPPGGGEDG 120 GGGGATAAAG GGGGAARKRV FVCPEPSCLH HDPAHALGDL VGIKKHFRRK HGGRRQWVCA 180 RCAKGYAVQS DYKAHLKTCG TRGHSCDCGR VFSRVESFIE HQDACNSSRM RGEVVAPPVP 240 STLPVIRPVV PRPHPPAVAA PPELQLLPAS STAAGPVTAT TALSTITAAT TTASQAEPHA 300 AATKLQLSIG PTVTAAASNG GGEEDAEELR RAVEEKAAAD AARERARAEA AAAERALEEA 360 RRARQRARAD LEKACALRDH AARLLAQVTC HACRQRSLVA MSMAAVGEGH GHGGPAVACD 420 PMRGGGVGAG I* |
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-17 | 173 | 227 | 3 | 57 | Zinc finger protein JACKDAW |
5b3h_F | 7e-17 | 173 | 227 | 3 | 57 | Zinc finger protein JACKDAW |
Search in ModeBase |
Expression -- UniGene ? help Back to Top | ||||||
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UniGene ID | E-value | Expressed in | ||||
Pvr.28186 | 0.0 | root |
Expression -- Description ? help Back to Top | ||||||
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Source | Description | |||||
Uniprot | DEVELOPMENTAL STAGE: Expression levels gradually decrease with aging in both the shoot and root vasculature. {ECO:0000269|PubMed:16813575}. | |||||
Uniprot | TISSUE SPECIFICITY: Mainly expressed in the endodermis, the gravity-sensing tissue in inflorescence stems. Mostly present in stems and flowers, and, to a lower extent, in seedlings, hypocotyls, roots and the shoot apical meristem (SAM). {ECO:0000269|PubMed:16813575}. |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Transcription factor involved in inflorescence stems gravitropism, probably by regulating starch accumulation in amyloplasts of graviperceptive cells. Required for stem circumnutation movements. Regulates lateral organ morphogenesis and gravitropic responses (PubMed:24039602). Acts cooperatively with IDD16 to control silique and branche orientation (PubMed:24039602). Involved in the establishment of auxin gradients through the regulation of auxin biosynthesis and transport (PubMed:24039602). {ECO:0000269|PubMed:16813575, ECO:0000269|PubMed:18259878, ECO:0000269|PubMed:24039602, ECO:0000269|PubMed:9210330}. |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | Pavir.9NG846600.1.p |
Regulation -- Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | INDUCTION: Not regulated by auxin. {ECO:0000269|PubMed:24039602}. |
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 | AK376150 | 0.0 | AK376150.1 Hordeum vulgare subsp. vulgare mRNA for predicted protein, complete cds, clone: NIASHv3116F03. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_025795974.1 | 0.0 | protein indeterminate-domain 16-like | ||||
Swissprot | F4IPE3 | 1e-109 | IDD15_ARATH; Zinc finger protein SHOOT GRAVITROPISM 5 | ||||
TrEMBL | A0A3L6SAP5 | 0.0 | A0A3L6SAP5_PANMI; Protein indeterminate-domain 16 | ||||
STRING | Pavir.J12350.1.p | 0.0 | (Panicum virgatum) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Monocots | OGMP1051 | 38 | 124 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT2G01940.1 | 3e-90 | C2H2-like zinc finger protein |
Link Out ? help Back to Top | |
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Phytozome | Pavir.9NG846600.1.p |
Publications ? help Back to Top | |||
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