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 | GSVIVT01008486001 | ||||||||
Common Name | LOC100260988, VIT_17s0000g01870 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; rosids incertae sedis; Vitales; Vitaceae; Vitis
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Family | C2H2 | ||||||||
Protein Properties | Length: 234aa MW: 26315.7 Da PI: 8.8561 | ||||||||
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 | 18.7 | 4.9e-06 | 57 | 79 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 y C++C++ F r nL+ H r+H GSVIVT01008486001 57 YICEICNQGFQRDQNLQMHRRRH 79 89********************9 PP | |||||||
2 | zf-C2H2 | 17.7 | 9.8e-06 | 134 | 156 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C+k + +s++k H++t+ GSVIVT01008486001 134 WVCEKCNKGYAVQSDYKAHLKTC 156 58*******************98 PP | |||||||
3 | zf-C2H2 | 10.8 | 0.0015 | 164 | 181 | 5 | 22 |
TTTEEESSHHHHHHHHHH CS zf-C2H2 5 dCgksFsrksnLkrHirt 22 dCg++Fsr +++ H+ GSVIVT01008486001 164 DCGRVFSRVESFIEHQDA 181 9**************976 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
SuperFamily | SSF57667 | 1.11E-5 | 56 | 79 | No hit | No description |
Gene3D | G3DSA:3.30.160.60 | 5.6E-6 | 56 | 79 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
PROSITE profile | PS50157 | 10.866 | 57 | 79 | IPR007087 | Zinc finger, C2H2 |
Pfam | PF12874 | 0.011 | 57 | 75 | No hit | No description |
SMART | SM00355 | 0.0065 | 57 | 79 | IPR015880 | Zinc finger, C2H2-like |
PROSITE pattern | PS00028 | 0 | 59 | 79 | IPR007087 | Zinc finger, C2H2 |
PROSITE pattern | PS01359 | 0 | 59 | 139 | IPR019786 | Zinc finger, PHD-type, conserved site |
SMART | SM00355 | 210 | 98 | 128 | IPR015880 | Zinc finger, C2H2-like |
Gene3D | G3DSA:3.30.160.60 | 9.6E-5 | 125 | 155 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SuperFamily | SSF57667 | 1.11E-5 | 129 | 154 | No hit | No description |
SMART | SM00355 | 46 | 134 | 161 | 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: 234 aa Download sequence Send to blast |
MLGCSNSDNN NNSSAEPFAS LENGSNSKRK RRPAGTPDPD AEVVSLSPKT LLESDRYICE 60 ICNQGFQRDQ NLQMHRRRHK VPWKLLKRET PVVRKRVFVC PEPSCLHHDP CHALGDLVGI 120 KKHFRRKHSN HKQWVCEKCN KGYAVQSDYK AHLKTCGTRG HSCDCGRVFS RVESFIEHQD 180 ACNMGHLRPE SQLLQPAACL SRTASSPSPS SETNFSVPPW SAVNHTESPL QYQ* |
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-18 | 130 | 183 | 3 | 56 | Zinc finger protein JACKDAW |
5b3h_F | 4e-18 | 130 | 183 | 3 | 56 | Zinc finger protein JACKDAW |
Search in ModeBase |
Expression -- UniGene ? help Back to Top | ||||||
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UniGene ID | E-value | Expressed in | ||||
Vvi.12549 | 0.0 | bud| fruit| leaf |
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}. |
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 | AM466939 | 0.0 | AM466939.2 Vitis vinifera contig VV78X012233.18, whole genome shotgun sequence. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_002283220.2 | 1e-167 | PREDICTED: protein SHOOT GRAVITROPISM 5 | ||||
Swissprot | F4IPE3 | 1e-115 | IDD15_ARATH; Zinc finger protein SHOOT GRAVITROPISM 5 | ||||
TrEMBL | A0A438K9X9 | 1e-165 | A0A438K9X9_VITVI; Protein SHOOT GRAVITROPISM 5 | ||||
STRING | VIT_17s0000g01870.t01 | 1e-166 | (Vitis vinifera) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Representative plant | OGRP95 | 16 | 242 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT2G01940.1 | 1e-113 | C2H2-like zinc finger protein |
Link Out ? help Back to Top | |
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Phytozome | GSVIVT01008486001 |
Entrez Gene | 100260988 |
Publications ? help Back to Top | |||
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