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 | XP_009107297.1 | ||||||||
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 | B3 | ||||||||
Protein Properties | Length: 213aa MW: 24380.6 Da PI: 9.4499 | ||||||||
Description | B3 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 | B3 | 47.1 | 4.4e-15 | 128 | 208 | 1 | 86 |
EEEE-..-HHHHTT-EE--HHH.HTT.---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-S CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh.ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldg 86 f vl ps+ + ++++lp fae++ +g++ + ++++ + ++W v++ k gr +++GW eF +n++ egD++vF+l + XP_009107297.1 128 FRVVLRPSYLYRGCIMYLPSGFAEKYlSGIS-GFIKIQ---LGEKQWPVRC--LYKAGRAKFSQGWYEFTLENNIGEGDVCVFELLS 208 678899********************84442.444555...677*******..666666779**********************865 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
Gene3D | G3DSA:2.40.330.10 | 3.4E-21 | 120 | 209 | IPR015300 | DNA-binding pseudobarrel domain |
SuperFamily | SSF101936 | 1.77E-20 | 121 | 208 | IPR015300 | DNA-binding pseudobarrel domain |
CDD | cd10017 | 3.90E-19 | 126 | 206 | No hit | No description |
Pfam | PF02362 | 2.2E-13 | 128 | 209 | IPR003340 | B3 DNA binding domain |
PROSITE profile | PS50863 | 12.167 | 128 | 213 | IPR003340 | B3 DNA binding domain |
SMART | SM01019 | 2.5E-12 | 128 | 212 | IPR003340 | B3 DNA binding domain |
Gene Ontology ? help Back to Top | ||||||
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GO Term | GO Category | GO Description | ||||
GO:0003677 | Molecular Function | DNA binding |
Sequence ? help Back to Top |
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Protein Sequence Length: 213 aa Download sequence Send to blast |
MDSTHSEFNK RARLFEDHQN KDAKVIHPMI PESTTPLDKG YDASTTTQNL FNESKPEVAT 60 PKVLKKRGRK KKNPNPEEVN SSTPRGDDSE NRSKFYESAS ARMRTVTAEE RERAITAAKA 120 YEPTNPFFRV VLRPSYLYRG CIMYLPSGFA EKYLSGISGF IKIQLGEKQW PVRCLYKAGR 180 AKFSQGWYEF TLENNIGEGD VCVFELLSTR DLF |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
4i1k_A | 2e-79 | 94 | 212 | 15 | 133 | B3 domain-containing transcription factor VRN1 |
4i1k_B | 2e-79 | 94 | 212 | 15 | 133 | B3 domain-containing transcription factor VRN1 |
Search in ModeBase |
Expression -- UniGene ? help Back to Top | ||||||
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UniGene ID | E-value | Expressed in | ||||
Bra.10954 | 0.0 | flower |
Expression -- Description ? help Back to Top | ||||||
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Source | Description | |||||
Uniprot | TISSUE SPECIFICITY: Ubiquitous. {ECO:0000269|PubMed:22232549}. |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Involved in the regulation of vernalization (By similarity). Binds to DNA in vitro in a non-sequence-specific manner. XLG2 promotes the DNA binding activity of RTV1 specifically to promoter regions of FT and SOC1 in vivo and thus leads to the activation of floral integrator genes. {ECO:0000250, ECO:0000269|PubMed:22232549}. |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | XP_009107297.1 |
Regulation -- Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | INDUCTION: By cold. {ECO:0000269|PubMed:22232549}. |
Regulation -- PlantRegMap ? help Back to Top | ||||||
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Source | Upstream Regulator | Target Gene | ||||
PlantRegMap | Retrieve | - |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_009107297.1 | 1e-160 | PREDICTED: B3 domain-containing protein REM19 | ||||
Swissprot | Q9XIB5 | 1e-131 | REM19_ARATH; B3 domain-containing protein REM19 | ||||
TrEMBL | M4DCH8 | 1e-158 | M4DCH8_BRARP; Uncharacterized protein | ||||
STRING | Bra014192.1-P | 1e-159 | (Brassica rapa) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Malvids | OGEM1124 | 28 | 103 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT1G49480.1 | 1e-107 | related to vernalization1 1 |
Publications ? help Back to Top | |||
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