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 30000.m000380
Common NameRCOM_1204520
Organism
Ricinus communis
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Euphorbiaceae; Acalyphoideae; Acalypheae; Ricinus
Family MYB
Protein Properties Length: 176aa    MW: 20645.2 Da    PI: 9.9079
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
30000.m000380genomeJCVIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding58.31.8e-18449147
                     TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS
  Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47
                     rg W + Ede+l+++v+++G+++W++Ia++++ gR++k+c++rw++ 
    30000.m000380  4 RGHWRPAEDEKLKELVERYGPHNWNAIAEKLQ-GRSGKSCRLRWFNQ 49
                     899*****************************.***********996 PP
2Myb_DNA-binding55.99.5e-185699146
                     TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS
  Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46
                     r ++T+eE+e+l+  ++ +G++ W+ Iar ++ gRt++ +k++w+ 
    30000.m000380 56 RTPFTEEEEERLLASHRIHGNR-WAVIARLFP-GRTDNAVKNHWHV 99
                     679*******************.*********.***********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129425.873154IPR017930Myb domain
SMARTSM007172.2E-15352IPR001005SANT/Myb domain
PfamPF002494.6E-18449IPR001005SANT/Myb domain
SuperFamilySSF466895.99E-30497IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.608.8E-28557IPR009057Homeodomain-like
CDDcd001674.35E-13748No hitNo description
PROSITE profilePS5129421.09455105IPR017930Myb domain
SMARTSM007171.2E-1555103IPR001005SANT/Myb domain
PfamPF002491.2E-145698IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.603.9E-2158104IPR009057Homeodomain-like
CDDcd001675.23E-115898No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009737Biological Processresponse to abscisic acid
GO:2000652Biological Processregulation of secondary cell wall biogenesis
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 176 aa     Download sequence    Send to blast
MCTRGHWRPA EDEKLKELVE RYGPHNWNAI AEKLQGRSGK SCRLRWFNQL DPRINRTPFT  60
EEEEERLLAS HRIHGNRWAV IARLFPGRTD NAVKNHWHVI MARKCRERSR LQAKRAAQCK  120
KQPVEFYDFL QVNTDSSKSE VIDNARRDDE EVDQEQKRKA GLAFIDFLSV GNSSST
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1mse_C8e-3511051105C-Myb DNA-Binding Domain
1msf_C8e-3511051105C-Myb DNA-Binding Domain
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that confers sensitivity to abscisic acid (ABA) and salt, but tolerance to drought (PubMed:21399993). Regulates secondary cell wall (SCW) biosynthesis, especially in interfascicular and xylary fibers (PubMed:18952777, PubMed:23781226). {ECO:0000269|PubMed:18952777, ECO:0000269|PubMed:21399993, ECO:0000269|PubMed:23781226}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00145DAPTransfer from AT1G17950Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMap30000.m000380
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By abscisic acid (PubMed:16463103, PubMed:21399993). Accumulates in response to salt (PubMed:21399993). Triggered by MYB46 and MYB83 in the regulation of secondary cell wall biosynthesis (PubMed:19674407, PubMed:22197883). {ECO:0000269|PubMed:16463103, ECO:0000269|PubMed:19674407, ECO:0000269|PubMed:21399993, ECO:0000269|PubMed:22197883}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025015096.11e-127transcription factor MYB52
SwissprotQ6R0C43e-72MYB52_ARATH; Transcription factor MYB52
TrEMBLB9SWD81e-128B9SWD8_RICCO; R2r3-myb transcription factor, putative
STRINGXP_002530307.11e-129(Ricinus communis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF23034243
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G17950.11e-74myb domain protein 52
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]
  2. Cassan-Wang H, et al.
    Identification of novel transcription factors regulating secondary cell wall formation in Arabidopsis.
    Front Plant Sci, 2013. 4: p. 189
    [PMID:23781226]
  3. Shi D, et al.
    MYB52 Negatively Regulates Pectin Demethylesterification in Seed Coat Mucilage.
    Plant Physiol., 2018. 176(4): p. 2737-2749
    [PMID:29440562]