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 RrC403_p1
Organism
Raphanus raphanistrum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family MYB
Protein Properties Length: 283aa    MW: 32367.7 Da    PI: 5.2223
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC403_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding47.44.3e-151461148
                     TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                     +g+WT++Ed +l + +  +G  +W+++++  g+ R++k+c++rw +yl
        RrC403_p1 14 KGPWTADEDRKLMNFILTHGQCCWRAVPKLAGLLRCGKSCRLRWTNYL 61
                     79******************************99************97 PP
2Myb_DNA-binding52.41.2e-1671111547
                      -HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS
  Myb_DNA-binding   5 TteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47 
                      +  E+++ +d++ qlG++ W++Ia++++ gRt++++k++w+++
        RrC403_p1  71 SDNEEKIVIDLHSQLGNR-WSKIASHLP-GRTDNEIKNHWNTH 111
                      677***************.*********.************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.605.2E-21562IPR009057Homeodomain-like
PROSITE profilePS5129413.883961IPR017930Myb domain
SuperFamilySSF466897.76E-2711108IPR009057Homeodomain-like
SMARTSM007177.8E-121363IPR001005SANT/Myb domain
PfamPF002495.3E-141461IPR001005SANT/Myb domain
CDDcd001672.73E-81661No hitNo description
PROSITE profilePS5129425.91462116IPR017930Myb domain
Gene3DG3DSA:1.10.10.602.3E-2463116IPR009057Homeodomain-like
SMARTSM007174.5E-1466114IPR001005SANT/Myb domain
PfamPF002494.1E-1471111IPR001005SANT/Myb domain
CDDcd001671.94E-1074112No 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:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 283 aa     Download sequence    Send to blast
MGRQPCCDKV GLKKGPWTAD EDRKLMNFIL THGQCCWRAV PKLAGLLRCG KSCRLRWTNY  60
LRPDLKRGLL SDNEEKIVID LHSQLGNRWS KIASHLPGRT DNEIKNHWNT HIKKKLRKMG  120
IDPLTHKPLS IVEQEEEEPL KKLQKPMEQT VEEPPNYSLT KDSNNKNMLV SYDDQLMAMN  180
LEYCVEEVPM IDPECLELIC NNSSMSSSTS TSSSSSNESS ILKDLQFPDF DWSDYGIHNN  240
NINGVGNIME NNVMSLWDVD DFSSWDLLLN DDIPQSSSTF GLF
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A2e-28121165108B-MYB
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that acts as positive regulator of abscisic acid (ABA) signaling in response to salt stress. Acts as negative regulator ABI1, ABI2 and PP2CA, which are protein phosphatases 2C acting as negative regulator of ABA signaling. Binds to the DNA specific sequence and core element 5'-ACGT-3' found in the promoters of ABI1 and PP2CA to negatively regulate their expression during ABA-dependent salt stress response. {ECO:0000269|PubMed:23660402}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Induced by salt stress, drought stress and abscisic acid (ABA). Down-regulated by salicylic acid (SA) methyl jasmonate (JA). {ECO:0000269|PubMed:23660402}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY5195651e-156AY519565.1 Arabidopsis thaliana MYB transcription factor (At1g66230) mRNA, complete cds.
GenBankBT0289041e-156BT028904.1 Arabidopsis thaliana unknown protein (At1g66230) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009105194.11e-168PREDICTED: protein ODORANT1
SwissprotQ9C7U71e-136MYB20_ARATH; Transcription factor MYB20
TrEMBLA0A078F7961e-166A0A078F796_BRANA; BnaA07g25720D protein
TrEMBLM4CIX11e-166M4CIX1_BRARP; Uncharacterized protein
STRINGBra004155.1-P1e-167(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM4282646
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G66230.11e-120myb domain protein 20
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]