PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Carubv10006245m
Common NameCARUB_v10006245mg
Organism
Capsella rubella
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family B3
Protein Properties Length: 354aa    MW: 40363.2 Da    PI: 5.022
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10006245mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B349.11e-153761998
                     -HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE- CS
               B3 19 pkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfr 98
                     p ++ ++   +   +k+++l+ + g sW+v    + +++++ l++GW++Fv++n L++gDf++F ++g++ f   v+++r
  Carubv10006245m  3 PISYYDQL--PRVLPKKVILQGPGGGSWNVAT--KIRGEEVHLAQGWSKFVEDNTLNDGDFLTFIYNGDRIF--EVSIYR 76
                     55555444..455889****************..99999999************************998888..777776 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM010197.6E-7178IPR003340B3 DNA binding domain
CDDcd100171.22E-12176No hitNo description
Gene3DG3DSA:2.40.330.108.7E-18180IPR015300DNA-binding pseudobarrel domain
PROSITE profilePS5086315.876178IPR003340B3 DNA binding domain
SuperFamilySSF1019369.61E-19180IPR015300DNA-binding pseudobarrel domain
PfamPF023621.2E-12276IPR003340B3 DNA binding domain
SMARTSM010191.1259351IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 354 aa     Download sequence    Send to blast
VIPISYYDQL PRVLPKKVIL QGPGGGSWNV ATKIRGEEVH LAQGWSKFVE DNTLNDGDFL  60
TFIYNGDRIF EVSIYRSDGC KETCEVTEVE DEKVDSVCSL SSDDTDTCPK PEMNNTIPKG  120
RDKGKSKVQV VEDSDEHENS VYSESSDETK TDSDTDSEFK IAKKTTPKRM NKGKKKKEAV  180
EESFDEDGDG DSDSDYVEAF GQLDVEEKSD SEDSSYAPEN EDTAATTCVK PKVPNLKRKV  240
EPKIKNPETY LDDPKNIHFE TNVKNRLYEL LVHAQLVKDY CLTFGDHVDY IDRFGKLRAK  300
TAKWKDQRVC IKRWMRICKR NELKKEDRIL CELLRRGSFV YAIKLHVIRG ENL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1yel_A1e-1428026104At1g16640
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10006245m
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_023635063.10.0B3 domain-containing protein At4g34400 isoform X1
SwissprotQ9SZ051e-154Y3440_ARATH; B3 domain-containing protein At4g34400
TrEMBLR0F8940.0R0F894_9BRAS; Uncharacterized protein (Fragment)
STRINGXP_006284943.10.0(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM65551641
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G34400.11e-140B3 family protein
Publications ? help Back to Top
  1. Mantegazza O, et al.
    Analysis of the arabidopsis REM gene family predicts functions during flower development.
    Ann. Bot., 2014. 114(7): p. 1507-15
    [PMID:25002525]
  2. Richter R, et al.
    Floral regulators FLC and SOC1 directly regulate expression of the B3-type transcription factor TARGET OF FLC AND SVP 1 at the Arabidopsis shoot apex via antagonistic chromatin modifications.
    PLoS Genet., 2019. 15(4): p. e1008065
    [PMID:30946745]