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PlantRegMap/PlantTFDB v5.0
Plant Transcription
Factor Database
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Home TFext BLAST Prediction Download Help About Links PlantRegMap |
Transcription Factor Information
Basic Information? help Back to Top | |||||||||
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TF ID | XP_009129183.1 | ||||||||
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: 438aa MW: 49158.3 Da PI: 8.9097 | ||||||||
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 | 17.6 | 1.1e-05 | 81 | 103 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 y C++C++ F r nL+ H r+H XP_009129183.1 81 YICEICNQGFQRDQNLQMHRRRH 103 89********************9 PP | |||||||
2 | zf-C2H2 | 14.5 | 0.0001 | 159 | 181 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C+ C+k + +s++k H++t+ XP_009129183.1 159 WVCERCSKGYAVQSDYKAHLKTC 181 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 | 5.6E-5 | 78 | 104 | No hit | No description |
Gene3D | G3DSA:3.30.160.60 | 1.3E-5 | 80 | 103 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SMART | SM00355 | 0.0065 | 81 | 103 | IPR015880 | Zinc finger, C2H2-like |
PROSITE profile | PS50157 | 10.866 | 81 | 103 | IPR007087 | Zinc finger, C2H2 |
PROSITE pattern | PS00028 | 0 | 83 | 103 | IPR007087 | Zinc finger, C2H2 |
SMART | SM00355 | 170 | 123 | 153 | IPR015880 | Zinc finger, C2H2-like |
Gene3D | G3DSA:3.30.160.60 | 6.5E-4 | 150 | 180 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SMART | SM00355 | 100 | 159 | 186 | 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: 438 aa Download sequence Send to blast |
MMRTDQDTVV MLDAAPNKNT SNTCCVVSSS SSDPFLSSSE NGVATTNTSN QKRKRRPAGT 60 PDPDAEVVSL SPRTLLESDR YICEICNQGF QRDQNLQMHR RRHKVPWKLL KRDNNIEVKK 120 RVYVCPEPSC LHHDPCHALG DLVGIKKHFR RKHSNHKQWV CERCSKGYAV QSDYKAHLKT 180 CGTRGHSCDC GRVFSRVESF IEHQDSCSIR KVHHEPPPPP QATVNVPACS SRTASTASTP 240 STETNYGGAV ATPLPLEGRP IPIRNSSNDV NLELQLLPLT PNQNRNQENQ QHKVKEPSHH 300 RNHHDTTNLN LSIAPSAPSL SHQYNNFDRI KEIMASEQIM KLAMKEKAYA EEAKREAKRQ 360 REIAENEFVN AKKIRQQAQA ELERAKLLKE QSMKKISSTI MQVTCQTCKG QFQAVASADE 420 TSLVVSYMSS ANTDGEAS |
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 | 157 | 207 | 5 | 55 | Zinc finger protein JACKDAW |
5b3h_F | 1e-17 | 157 | 207 | 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 | XP_009129183.1 |
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 | AK226703 | 0.0 | AK226703.1 Arabidopsis thaliana mRNA for putative C2H2-type zinc finger protein, complete cds, clone: RAFL07-61-I21. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_009129183.1 | 0.0 | PREDICTED: protein SHOOT GRAVITROPISM 5 isoform X1 | ||||
Refseq | XP_018511767.1 | 0.0 | PREDICTED: protein SHOOT GRAVITROPISM 5 isoform X2 | ||||
Swissprot | F4IPE3 | 0.0 | IDD15_ARATH; Zinc finger protein SHOOT GRAVITROPISM 5 | ||||
TrEMBL | M4ECW4 | 0.0 | M4ECW4_BRARP; Uncharacterized 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 |
Publications ? help Back to Top | |||
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