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 | GSBRNA2T00090106001 | ||||||||
Common Name | GSBRNA2T00090106001 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
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Family | C2H2 | ||||||||
Protein Properties | Length: 443aa MW: 49495 Da PI: 9.199 | ||||||||
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 | 17.5 | 1.1e-05 | 80 | 102 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 y C++C++ F r nL+ H r+H GSBRNA2T00090106001 80 YICEICNQGFQRDQNLQMHRRRH 102 89********************9 PP | |||||||
2 | zf-C2H2 | 14.5 | 0.0001 | 158 | 180 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C+ C+k + +s++k H++t+ GSBRNA2T00090106001 158 WVCERCSKGYAVQSDYKAHLKTC 180 58*******************98 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
SuperFamily | SSF57667 | 5.78E-5 | 77 | 103 | No hit | No description |
Gene3D | G3DSA:3.30.160.60 | 1.3E-5 | 79 | 102 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
PROSITE profile | PS50157 | 10.866 | 80 | 102 | IPR007087 | Zinc finger, C2H2 |
SMART | SM00355 | 0.0065 | 80 | 102 | IPR015880 | Zinc finger, C2H2-like |
PROSITE pattern | PS00028 | 0 | 82 | 102 | IPR007087 | Zinc finger, C2H2 |
SMART | SM00355 | 160 | 122 | 152 | IPR015880 | Zinc finger, C2H2-like |
Gene3D | G3DSA:3.30.160.60 | 6.4E-4 | 149 | 179 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SMART | SM00355 | 100 | 158 | 185 | 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: 443 aa Download sequence Send to blast |
MKTDQGAVVM LDDAASKKNT TNTRCVVFSS SDILLPSSEN GVTTTKTSTQ KRKRRPAGTP 60 DPDAEVVSLS PRTLLESDRY ICEICNQGFQ RDQNLQMHRR RHKVPWKLLK RDNNIEVKKR 120 VYVCPEPTCL HHDPCHALGD LVGIKKHFRR KHSNHKQWVC ERCSKGYAVQ SDYKAHLKTC 180 GTRGHSCDCG RVFSRVESFI EHQDNCSIRK VHHEPPPPPQ AMVNVPACSS RTASTASTPS 240 TETNYGGAVA TPLPLEGRPI PIRNSSNDVN LELQLLPLTP NQNPNQENQQ HKVKEPSHHR 300 NHHDTTNLNL SIAPSAPSLS HQYNNFDRIK EIMASEQIMK IAMKEKAYAE EAKREAKRQR 360 EIAENEFVNA KKIRQQAQAE LERAKLLKEQ SVKKISSTIM QVTCQICKGQ FQAVAVPAAA 420 SADETSLVVS YMSSANTDGE AS* |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
5b3h_C | 1e-17 | 156 | 206 | 5 | 55 | Zinc finger protein JACKDAW |
5b3h_F | 1e-17 | 156 | 206 | 5 | 55 | Zinc finger protein JACKDAW |
Search in ModeBase |
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 | GSBRNA2T00090106001 |
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 | HM222924 | 0.0 | HM222924.1 Thellungiella parvula phosphatase, cyclin J18, clathrin assembly protein-related protein, BPC1, SGR5/ATIDD15, leucine-rich receptor kinase, endomemebrane protein 70, salt overly sensitive 1, glutamate decarboxylae 4, oligopeptide transport protein, peptide transporter, and NADH-ubiquinone oxidoreductase B18 genes, complete cds; and unknown genes. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_013695617.1 | 0.0 | protein SHOOT GRAVITROPISM 5-like | ||||
Swissprot | F4IPE3 | 0.0 | IDD15_ARATH; Zinc finger protein SHOOT GRAVITROPISM 5 | ||||
TrEMBL | A0A078FMX7 | 0.0 | A0A078FMX7_BRANA; BnaC02g34190D protein | ||||
STRING | Bra026624.1-P | 0.0 | (Brassica rapa) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Malvids | OGEM693 | 28 | 131 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT2G01940.1 | 0.0 | C2H2-like zinc finger protein |