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 Cagra.4138s0007.1.p
Organism
Capsella grandiflora
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: 232aa    MW: 25293.5 Da    PI: 9.9893
Description MYB_related family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cagra.4138s0007.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding37.36.5e-1292136347
                          SS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS
      Myb_DNA-binding   3 rWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47 
                          +WT+eE+  ++ + ++lG+g+W+ I+r +  ++++ q+ s+ qk+
  Cagra.4138s0007.1.p  92 PWTEEEHRTFLIGLEKLGKGDWRGISRNFVVTKSPTQVASHAQKH 136
                          8******************************************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS501588.532318IPR001878Zinc finger, CCHC-type
PROSITE profilePS5129417.87384141IPR017930Myb domain
SuperFamilySSF466891.87E-1587141IPR009057Homeodomain-like
SMARTSM007171.5E-889139IPR001005SANT/Myb domain
TIGRFAMsTIGR015572.4E-1689140IPR006447Myb domain, plants
Gene3DG3DSA:1.10.10.605.3E-1089136IPR009057Homeodomain-like
PfamPF002498.7E-1092136IPR001005SANT/Myb domain
CDDcd001673.98E-892137No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
GO:0008270Molecular Functionzinc ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 232 aa     Download sequence    Send to blast
MGRRCSHCGN VGHNSRTCSS YHTRAIRLFG VHLDTTSSSP PPPSPPSILT AAMKKSFSMD  60
CLPACSSSSS SFAGYLSDGL SHKTPDRRKG VPWTEEEHRT FLIGLEKLGK GDWRGISRNF  120
VVTKSPTQVA SHAQKHFLRQ TTTLNHKRRR TSLFDMVSAG KVEENSTLQS ICNDHIESTS  180
KVVWKQGLLN PSLGYQDPKV SESGNSGGLD LELKLASIQS PESNIRPISV T*
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
PlantRegMapCagra.4138s0007.1.p
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
GenBankAY5195170.0AY519517.1 Arabidopsis thaliana MYB transcription factor (At5g56840) mRNA, complete cds.
GenBankBT0125280.0BT012528.1 Arabidopsis thaliana At5g56840 gene, complete cds.
GenBankBT0149560.0BT014956.1 Arabidopsis thaliana At5g56840 gene, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006280948.21e-169transcription factor MYBS3
SwissprotQ7XC571e-46MYBS3_ORYSJ; Transcription factor MYBS3
TrEMBLR0EY531e-167R0EY53_9BRAS; Uncharacterized protein
STRINGCagra.4138s0007.1.p1e-171(Capsella grandiflora)
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-137MYB_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]