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 KFK41782.1
Organism
Arabis alpina
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Arabideae; Arabis
Family MYB
Protein Properties Length: 235aa    MW: 27307.9 Da    PI: 10.016
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
KFK41782.1genomeMPIPBRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding59.38.7e-19449147
                     TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS
  Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47
                     rg W + Ede+l+d+v+q+G+++W++Ia +++ gR++k+c++rw++ 
       KFK41782.1  4 RGHWRPAEDEKLKDLVEQYGPHNWNAIALKLP-GRSGKSCRLRWFNQ 49
                     899*****************************.***********996 PP
2Myb_DNA-binding60.63.4e-195699146
                     TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS
  Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46
                     r+++T+eE+e+l+ a++ +G++ W+ Iar ++ gRt++ +k++w+ 
       KFK41782.1 56 RNPFTEEEEERLLAAHRIHGNR-WSIIARLFP-GRTDNAVKNHWHV 99
                     789*******************.*********.***********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129419.673150IPR017930Myb domain
SMARTSM007171.1E-15352IPR001005SANT/Myb domain
PfamPF002491.9E-17449IPR001005SANT/Myb domain
SuperFamilySSF466893.33E-30497IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.602.4E-27557IPR009057Homeodomain-like
CDDcd001676.42E-15748No hitNo description
PROSITE profilePS5129426.37951105IPR017930Myb domain
SMARTSM007171.9E-1655103IPR001005SANT/Myb domain
PfamPF002497.6E-165698IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.601.0E-2158104IPR009057Homeodomain-like
CDDcd001679.95E-86798No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:2000652Biological Processregulation of secondary cell wall biogenesis
GO:0005634Cellular Componentnucleus
GO:0044212Molecular Functiontranscription regulatory region DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 235 aa     Download sequence    Send to blast
MCSRGHWRPA EDEKLKDLVE QYGPHNWNAI ALKLPGRSGK SCRLRWFNQL DPRINRNPFT  60
EEEEERLLAA HRIHGNRWSI IARLFPGRTD NAVKNHWHVI MARRTRQTSK PDHRLIPSTT  120
SSSSFMASEQ MMMSCGDRKR ILPADVISNY PYQFSHINHL QFLKEFFTGK IALNAKANQS  180
KKPMEFYNFL QVNTDSNKSE IIDQDSDQSN LKDLDNKNES RVPFFDFLSV GKSAS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1mse_C6e-3211051105C-Myb DNA-Binding Domain
1msf_C6e-3211051105C-Myb DNA-Binding Domain
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that regulates secondary cell wall (SCW) biosynthesis, especially in interfascicular and xylary fibers. {ECO:0000269|PubMed:18952777}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapKFK41782.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAF0628901e-146AF062890.1 Arabidopsis thaliana putative transcription factor (MYB54) mRNA, complete cds.
GenBankAK2274021e-146AK227402.1 Arabidopsis thaliana mRNA for hypothetical protein, complete cds, clone: RAFL14-06-B21.
GenBankAY5195691e-146AY519569.1 Arabidopsis thaliana MYB transcription factor (At1g73410) mRNA, complete cds.
GenBankBT0248511e-146BT024851.1 Arabidopsis thaliana At1g73410 gene, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018454934.11e-151PREDICTED: transcription factor WER
SwissprotQ9FX361e-143MYB54_ARATH; Transcription factor MYB54
TrEMBLA0A087HI301e-176A0A087HI30_ARAAL; Uncharacterized protein
STRINGA0A087HI301e-177(Arabis alpina)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM28182769
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G73410.11e-136myb domain protein 54
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]