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 Carubv10026949m
Common NameCARUB_v10026949mg
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 MYB_related
Protein Properties Length: 273aa    MW: 29805.7 Da    PI: 9.9894
Description MYB_related family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10026949mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding36.98.4e-12133177347
                      SS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS
  Myb_DNA-binding   3 rWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47 
                      +WT+eE+  ++ + ++lG+g+W+ I+r +  ++++ q+ s+ qk+
  Carubv10026949m 133 PWTEEEHRTFLIGLEKLGKGDWRGISRNFVVTKSPTQVASHAQKH 177
                      8******************************************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS501588.5324459IPR001878Zinc finger, CCHC-type
PROSITE profilePS5129417.873125182IPR017930Myb domain
SuperFamilySSF466892.47E-15128182IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.607.0E-10130177IPR009057Homeodomain-like
SMARTSM007171.5E-8130180IPR001005SANT/Myb domain
TIGRFAMsTIGR015573.1E-16130181IPR006447Myb domain, plants
CDDcd001676.48E-8133178No hitNo description
PfamPF002491.1E-9133177IPR001005SANT/Myb domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0016021Cellular Componentintegral component of membrane
GO:0003677Molecular FunctionDNA binding
GO:0008270Molecular Functionzinc ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 273 aa     Download sequence    Send to blast
MLSTILHNPQ NTSSSSTIQH HLSLSLFFSL SLLSFSFSFI AMGRRCSHCG NVGHNSRTCS  60
SYHTRAIRLF GVHLDTTSSS PPPPSPPSIL TAAMKKSFSM DCLPACSSSS SSFAGYLSDG  120
LSQKTPDRRK GVPWTEEEHR TFLIGLEKLG KGDWRGISRN FVVTKSPTQV ASHAQKHFLR  180
QTTTLNHKRR RTSLFDMVSV GKVEENSTLQ SICNDHIEST SKVVWKQGLL NPSLGYPDPK  240
VSESGNSGGL DLELKLASIQ SPESNIRPIS VT*
Functional Description ? help Back to Top
Source Description
UniProtTranscription repressor that binds to 5'-TATCCA-3' elements in gene promoters. Contributes to the sugar-repressed transcription of promoters containing SRS or 5'-TATCCA-3' elements. Transcription repressor involved in a cold stress response pathway that confers cold tolerance. Suppresses the DREB1-dependent signaling pathway under prolonged cold stress. DREB1 responds quickly and transiently while MYBS3 responds slowly to cold stress. They may act sequentially and complementarily for adaptation to short- and long-term cold stress (PubMed:20130099). {ECO:0000269|PubMed:12172034, ECO:0000269|PubMed:20130099}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00565DAPTransfer from AT5G56840Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10026949m
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Repressed by sucrose and gibberellic acid (GA) (PubMed:12172034). Induced by cold stress in roots and shoots. Induced by salt stress in shoots. Down-regulated by abscisic aci (ABA) in shoots (PubMed:20130099). {ECO:0000269|PubMed:12172034, ECO:0000269|PubMed:20130099}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0125280.0BT012528.1 Arabidopsis thaliana At5g56840 gene, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006280948.21e-171transcription factor MYBS3
SwissprotQ7XC572e-46MYBS3_ORYSJ; Transcription factor MYBS3
TrEMBLR0EY530.0R0EY53_9BRAS; Uncharacterized protein
STRINGXP_006280948.10.0(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM54962747
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G56840.11e-136MYB_related family protein
Publications ? help Back to Top
  1. Rice Chromosome 10 Sequencing Consortium
    In-depth view of structure, activity, and evolution of rice chromosome 10.
    Science, 2003. 300(5625): p. 1566-9
    [PMID:12791992]
  2. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]
  3. Su CF, et al.
    A novel MYBS3-dependent pathway confers cold tolerance in rice.
    Plant Physiol., 2010. 153(1): p. 145-58
    [PMID:20130099]