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 | Phvul.001G176200.1 | ||||||||
Common Name | PHAVU_001G176200g | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Phaseolus
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Family | C2H2 | ||||||||
Protein Properties | Length: 500aa MW: 54374.9 Da PI: 9.5959 | ||||||||
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 | 16.2 | 3e-05 | 65 | 87 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C++C+k F r nL+ H r H Phvul.001G176200.1 65 FICEICNKGFQRDQNLQLHRRGH 87 89*******************88 PP | |||||||
2 | zf-C2H2 | 13.9 | 0.00016 | 141 | 163 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k + +s+ k H +t+ Phvul.001G176200.1 141 WKCEKCSKKYAVQSDWKAHTKTC 163 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 | 1.62E-6 | 64 | 87 | No hit | No description |
Gene3D | G3DSA:3.30.160.60 | 1.3E-5 | 64 | 87 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SMART | SM00355 | 0.022 | 65 | 87 | IPR015880 | Zinc finger, C2H2-like |
Pfam | PF12171 | 6.0E-5 | 65 | 87 | IPR022755 | Zinc finger, double-stranded RNA binding |
PROSITE profile | PS50157 | 10.845 | 65 | 87 | IPR007087 | Zinc finger, C2H2 |
PROSITE pattern | PS00028 | 0 | 67 | 87 | IPR007087 | Zinc finger, C2H2 |
SMART | SM00355 | 140 | 106 | 136 | IPR015880 | Zinc finger, C2H2-like |
Gene3D | G3DSA:3.30.160.60 | 4.4E-5 | 129 | 162 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SuperFamily | SSF57667 | 1.62E-6 | 136 | 161 | No hit | No description |
SMART | SM00355 | 130 | 141 | 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: 500 aa Download sequence Send to blast |
MQMIPSDPFS LSTTLPGLPN EQNTNPNPNP PPPLTKKKRN LPGTPDPDAE VIALSPKTLM 60 ATNRFICEIC NKGFQRDQNL QLHRRGHNLP WKLRQRSNKE VRKKVYICPE KTCVHHHAAR 120 ALGDLTGIKK HYSRKHGEKK WKCEKCSKKY AVQSDWKAHT KTCGTREYKC DCGTLFSRKD 180 SFITHRAFCD ALVEESSRLS SVSTSSLNFK SEDATVMNTQ AGLSSHGLIT GQGMQSVPHF 240 GPHGFRLMGM GADQQRPNLS LWLNQGNHHI NNPLDVASSS SSGLPEVVQI AQANNALIGS 300 SSIFSNFGMP ASNSKGEGGA SDLASIYSES QNKNSISASP MSATALLQKA AQMGSTRSTN 360 PSIFRGSFGV MSSSSAQSTS LNSNANQSCD QLNQAFQNFN QHENFNGSSS SATMLGSSTD 420 FSSLTHSSNG FDQFLMQNNV EPTQLKLHPV SNTVEHNLTR DFLGMSRNGG GHPFLPQELV 480 KFASLGSSMG LNQFTAAHQ* |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
5b3h_C | 8e-38 | 137 | 206 | 3 | 72 | Zinc finger protein JACKDAW |
5b3h_F | 8e-38 | 137 | 206 | 3 | 72 | Zinc finger protein JACKDAW |
Search in ModeBase |
Nucleic Localization Signal ? help Back to Top | |||
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No. | Start | End | Sequence |
1 | 91 | 103 | KLRQRSNKEVRKK |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Transcription factor that, together with BIB, regulates tissue boundaries and asymmetric cell division by a rapid up-regulation of 'SCARECROW' (SCR), thus controlling the nuclear localization of 'SHORT-ROOT' (SHR) and restricting its action (PubMed:17785527, PubMed:25829440). Binds DNA via its zinc fingers (PubMed:28211915, PubMed:24821766). Recognizes and binds to SCL3 promoter sequence 5'-AGACAA-3' to promotes its expression when in complex with RGA (PubMed:24821766). Confines CYCD6 expression to the cortex-endodermis initial/daughter (CEI/CEID) tissues (PubMed:25829440). Required for radial patterning and stem cell maintenance (PubMed:17785527). Counteracted by 'MAGPIE' (MGP) (PubMed:17785527). Binds to the SCR and MGP promoter sequences (PubMed:21935722). Controls position-dependent signals that regulate epidermal-cell-type patterning (PubMed:20356954). {ECO:0000269|PubMed:17785527, ECO:0000269|PubMed:20356954, ECO:0000269|PubMed:21935722, ECO:0000269|PubMed:24821766, ECO:0000269|PubMed:25829440, ECO:0000269|PubMed:28211915}. |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | Phvul.001G176200.1 |
Regulation -- Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | INDUCTION: Not regulated by SCR and SHR. {ECO:0000269|PubMed:21935722}. |
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 | AP015037 | 0.0 | AP015037.1 Vigna angularis var. angularis DNA, chromosome 4, almost complete sequence, cultivar: Shumari. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_007162739.1 | 0.0 | hypothetical protein PHAVU_001G176200g | ||||
Swissprot | Q700D2 | 1e-135 | IDD10_ARATH; Zinc finger protein JACKDAW | ||||
TrEMBL | V7CZC3 | 0.0 | V7CZC3_PHAVU; Uncharacterized protein | ||||
STRING | XP_007162739.1 | 0.0 | (Phaseolus vulgaris) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Fabids | OGEF181 | 34 | 275 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT5G03150.1 | 1e-105 | C2H2-like zinc finger protein |
Link Out ? help Back to Top | |
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Phytozome | Phvul.001G176200.1 |
Entrez Gene | 18641733 |
Publications ? help Back to Top | |||
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