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 | GSBRNA2T00005597001 | ||||||||
Common Name | GSBRNA2T00005597001 | ||||||||
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: 343aa MW: 39557.8 Da PI: 9.4015 | ||||||||
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 | 53.4 | 4.6e-17 | 5 | 95 | 1 | 94 |
EEEE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTE.EEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE. CS B3 1 ffkvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgr.yvltkGWkeFvkangLkegDfvvFkldgrsefe 91 ff +l+ s++ +++rl++p kf+++++ + s+ + l+ ++g +W+v l rk ++ +++++GW+eFv+ ++ g ++F+++g+s f+ GSBRNA2T00005597001 5 FFHKLIFSSTIQEKRLRVPDKFVSKFKDE--LSVAVALTVPDGHVWRVGL--RKADNNkIWFQDGWQEFVDRYSIRIGYLLIFRYEGNSAFS 92 899999*****************999755..99*****************..66655559***************************99995 PP .EE CS B3 92 lvv 94 ++ GSBRNA2T00005597001 93 VYI 95 544 PP | |||||||
2 | B3 | 54.9 | 1.6e-17 | 245 | 338 | 1 | 99 |
EEEE-..-HHHHTT-EE--HHH.HTT.---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSE CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh.ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrse 89 f vl ps+ + ++++lp fae++ +g++ + +++ ++ ++W v++ k gr +++GW eF +n+L egD++vF+l ++++ GSBRNA2T00005597001 245 FRVVLRPSYLYRGCIMYLPSGFAEKYlSGIS-GFIKV---QLGEKQWPVRC--LYKAGRAKFSQGWYEFTLENNLGEGDVCVFELLRTRD 328 677899********************84442.43344...4677*******..666666779************************99** PP E..EEEEE-S CS B3 90 felvvkvfrk 99 f l+v++fr GSBRNA2T00005597001 329 FVLKVTAFRV 338 *****99985 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 | 6.8E-22 | 3 | 98 | IPR015300 | DNA-binding pseudobarrel domain |
SuperFamily | SSF101936 | 4.9E-21 | 3 | 98 | IPR015300 | DNA-binding pseudobarrel domain |
PROSITE profile | PS50863 | 14.649 | 5 | 99 | IPR003340 | B3 DNA binding domain |
Pfam | PF02362 | 3.5E-14 | 5 | 95 | IPR003340 | B3 DNA binding domain |
SMART | SM01019 | 1.0E-17 | 5 | 99 | IPR003340 | B3 DNA binding domain |
CDD | cd10017 | 4.97E-19 | 5 | 97 | No hit | No description |
Gene3D | G3DSA:2.40.330.10 | 4.0E-23 | 237 | 338 | IPR015300 | DNA-binding pseudobarrel domain |
SuperFamily | SSF101936 | 2.55E-22 | 238 | 339 | IPR015300 | DNA-binding pseudobarrel domain |
CDD | cd10017 | 1.57E-20 | 243 | 337 | No hit | No description |
Pfam | PF02362 | 6.4E-16 | 245 | 338 | IPR003340 | B3 DNA binding domain |
SMART | SM01019 | 2.7E-21 | 245 | 339 | IPR003340 | B3 DNA binding domain |
PROSITE profile | PS50863 | 12.633 | 245 | 339 | IPR003340 | B3 DNA binding domain |
Gene Ontology ? help Back to Top | ||||||
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GO Term | GO Category | GO Description | ||||
GO:0006355 | Biological Process | regulation of transcription, DNA-templated | ||||
GO:0009909 | Biological Process | regulation of flower development | ||||
GO:0010048 | Biological Process | vernalization response | ||||
GO:0005654 | Cellular Component | nucleoplasm | ||||
GO:0003677 | Molecular Function | DNA binding |
Sequence ? help Back to Top |
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Protein Sequence Length: 343 aa Download sequence Send to blast |
MPRPFFHKLI FSSTIQEKRL RVPDKFVSKF KDELSVAVAL TVPDGHVWRV GLRKADNNKI 60 WFQDGWQEFV DRYSIRIGYL LIFRYEGNSA FSVYIYNLSH SEINYHSTGL MDSAHNHFKR 120 ARLFEDLEDE DVEVVHPSSL YPLQHPETTG HANKGHTSSA IQSFFAEPVK AEETTPTPKV 180 PKKRGRKKKN ADPEEINSSA PRDDDPENRS KFYESASARK RTVTAEERER AINAAKTFEP 240 TNPFFRVVLR PSYLYRGCIM YLPSGFAEKY LSGISGFIKV QLGEKQWPVR CLYKAGRAKF 300 SQGWYEFTLE NNLGEGDVCV FELLRTRDFV LKVTAFRVNE YV* |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
4i1k_A | 8e-94 | 208 | 342 | 12 | 146 | B3 domain-containing transcription factor VRN1 |
4i1k_B | 8e-94 | 208 | 342 | 12 | 146 | 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 | ||||
Bna.6174 | 1e-157 | flower| leaf| microspore-derived embryo| seed |
Expression -- Description ? help Back to Top | ||||||
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Source | Description | |||||
Uniprot | TISSUE SPECIFICITY: Expressed in roots and at lower levels in aerial parts. {ECO:0000269|PubMed:12114624}. |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Involved in the regulation of vernalization. Acts as transcriptional repressor of FLC, a major target of the vernalization pathway. Binds DNA in vitro in a non-sequence-specific manner. {ECO:0000269|PubMed:12114624}. |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | GSBRNA2T00005597001 |
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 | AK353269 | 0.0 | AK353269.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-34-E14. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_009112206.1 | 0.0 | PREDICTED: B3 domain-containing transcription factor VRN1 | ||||
Refseq | XP_013694026.1 | 0.0 | B3 domain-containing transcription factor VRN1 | ||||
Refseq | XP_013721398.1 | 0.0 | B3 domain-containing transcription factor VRN1 | ||||
Swissprot | Q8L3W1 | 0.0 | VRN1_ARATH; B3 domain-containing transcription factor VRN1 | ||||
TrEMBL | A0A078G0N6 | 0.0 | A0A078G0N6_BRANA; BnaA01g26330D protein | ||||
STRING | Bra037544.1-P | 0.0 | (Brassica rapa) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Malvids | OGEM1124 | 28 | 103 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT3G18990.1 | 0.0 | B3 family protein |
Publications ? help Back to Top | |||
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