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 XP_009123357.1
Organism
Brassica rapa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family MYB
Protein Properties Length: 475aa    MW: 52750.8 Da    PI: 6.9226
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009123357.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding53.26.7e-1774120148
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 
                      +g WT+eEde l +av ++ g++Wk+Ia+ ++  Rt+ qc +rwqk+l
   XP_009123357.1  74 KGGWTPEEDETLRQAVCKFNGKSWKKIAEFFP-DRTEVQCLHRWQKVL 120
                      688*****************************.************986 PP
2Myb_DNA-binding574.4e-18126172148
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 
                      +g+WT++Ede+++++v+++G+  W+ I+  ++ gR +kqc++rw+++l
   XP_009123357.1 126 KGPWTQQEDEKIIELVEKYGPAKWSIISDSLP-GRIGKQCRERWHNHL 172
                      79******************************.*************97 PP
3Myb_DNA-binding57.92.4e-18178221146
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 
                      +++WT+eE++ l +a++ +G++ W+ Ia+ ++ gRt++++k++w++
   XP_009123357.1 178 KDAWTPEEELALMNAHRVHGNK-WAEIAKVLP-GRTDNSIKNHWNS 221
                      679*******************.*********.***********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129415.1669120IPR017930Myb domain
SuperFamilySSF466891.29E-1671129IPR009057Homeodomain-like
SMARTSM007177.3E-1473122IPR001005SANT/Myb domain
PfamPF002491.8E-1574120IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.601.1E-2276132IPR009057Homeodomain-like
CDDcd001673.55E-1277120No hitNo description
PROSITE profilePS5129431.304121176IPR017930Myb domain
SuperFamilySSF466894.49E-32123219IPR009057Homeodomain-like
SMARTSM007172.6E-17125174IPR001005SANT/Myb domain
PfamPF002493.6E-17126172IPR001005SANT/Myb domain
CDDcd001675.16E-14128172No hitNo description
Gene3DG3DSA:1.10.10.602.7E-26133179IPR009057Homeodomain-like
SMARTSM007176.8E-17177225IPR001005SANT/Myb domain
PROSITE profilePS5129422.885177227IPR017930Myb domain
PfamPF002491.1E-16178221IPR001005SANT/Myb domain
CDDcd001672.17E-12180223No hitNo description
Gene3DG3DSA:1.10.10.601.5E-23180226IPR009057Homeodomain-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 475 aa     Download sequence    Send to blast
MSCDLNPPPD EEVKMEDECV ENKQSRAAAS CSSVSEGSSG GSSSFLKSPP AVASPPPTAS  60
PTPRRTSGPI RRAKGGWTPE EDETLRQAVC KFNGKSWKKI AEFFPDRTEV QCLHRWQKVL  120
NPDLIKGPWT QQEDEKIIEL VEKYGPAKWS IISDSLPGRI GKQCRERWHN HLNPGINKDA  180
WTPEEELALM NAHRVHGNKW AEIAKVLPGR TDNSIKNHWN SSLKKKSEFL LANGSLPPAA  240
ATNGVPSCFQ RRLSVSVAQT SSGRTQINKP REEVAAASPM AGFEEYVRSS QLPKPEPSPE  300
DHHMASEADK QRMYGYECGC SPSASSPVIF FTPPPPSREE YSSNGSAPRS PESFLREAAR  360
TFPNTPSIFR KRRRKAVVVP DNNKTDEEEA AKEVVDEKVN GISETTDCEE KENSGSNAYN  420
LSPPYRIRSK RTAVFKSRQL EFISPEEEKV DDETKSSEKD KLLDGGDSQL SGQEK
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1h88_C6e-69732265158MYB PROTO-ONCOGENE PROTEIN
1h89_C6e-69732265158MYB PROTO-ONCOGENE PROTEIN
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1369373RKRRR
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed both in proliferating and maturing stages of leaves. {ECO:0000269|PubMed:26069325}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that binds 5'-AACGG-3' motifs in gene promoters (By similarity). Transcription repressor that regulates organ growth. Binds to the promoters of G2/M-specific genes and to E2F target genes to prevent their expression in post-mitotic cells and to restrict the time window of their expression in proliferating cells (PubMed:26069325). {ECO:0000250|UniProtKB:Q94FL9, ECO:0000269|PubMed:26069325}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009123357.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Slightly induced by ethylene, auxin (IAA), jasmonic acid (JA) and salicylic acid (SA). {ECO:0000269|PubMed:16463103}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAF2141171e-150AF214117.2 Arabidopsis thaliana putative c-myb-like transcription factor (MYB3R3) mRNA, complete cds.
GenBankAY1426491e-150AY142649.1 Arabidopsis thaliana putative MYB family transcription factor (At3g09370) mRNA, complete cds.
GenBankAY5196511e-150AY519651.1 Arabidopsis thaliana MYB transcription factor (At3g09370) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009123357.10.0PREDICTED: transcriptional activator Myb-like isoform X2
SwissprotQ8H1P90.0MB3R3_ARATH; Transcription factor MYB3R-3
TrEMBLM4EZ240.0M4EZ24_BRARP; Uncharacterized protein
STRINGBra034067.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM16672887
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G09370.10.0myb domain protein 3r-3
Publications ? help Back to Top
  1. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  2. Kobayashi K, et al.
    Transcriptional repression by MYB3R proteins regulates plant organ growth.
    EMBO J., 2015. 34(15): p. 1992-2007
    [PMID:26069325]
  3. Chen P, et al.
    Arabidopsis R1R2R3-Myb proteins are essential for inhibiting cell division in response to DNA damage.
    Nat Commun, 2017. 8(1): p. 635
    [PMID:28935922]