PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID XP_009125538.1
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: 912aa    MW: 101038 Da    PI: 5.2496
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009125538.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding57.43.4e-183581148
                     TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                     +g WT+eEde l +av+++ g++Wk+Ia+++   Rt+ qc +rwqk+l
   XP_009125538.1 35 KGQWTPEEDEVLCKAVERFQGKNWKKIAECVK-DRTDVQCLHRWQKVL 81
                     799****************************9.************986 PP
2Myb_DNA-binding58.51.5e-1887133148
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 
                      +g+W++eEd  ++ +v+++G+  W+tI+++++ gR +kqc++rw+++l
   XP_009125538.1  87 KGPWSKEEDNTIIALVEKYGPSKWSTISQHLP-GRIGKQCRERWHNHL 133
                      79******************************.*************97 PP
3Myb_DNA-binding51.81.9e-16139181145
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHH CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwq 45 
                      +++WT+eE++ l++a++ +G++ W+  ++ ++ gR+++ +k++w+
   XP_009125538.1 139 KNAWTQEEELTLIRAHQIYGNK-WAELMKFLP-GRSDNAIKNHWN 181
                      689*******************.*********.***********9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129417.0713081IPR017930Myb domain
SuperFamilySSF466891.65E-183395IPR009057Homeodomain-like
SMARTSM007171.2E-143483IPR001005SANT/Myb domain
PfamPF002492.8E-153581IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.601.1E-213793IPR009057Homeodomain-like
CDDcd001672.21E-133881No hitNo description
PROSITE profilePS5129431.51782137IPR017930Myb domain
SuperFamilySSF466894.87E-3184180IPR009057Homeodomain-like
SMARTSM007171.1E-1786135IPR001005SANT/Myb domain
PfamPF002492.3E-1787133IPR001005SANT/Myb domain
CDDcd001672.48E-1589133No hitNo description
Gene3DG3DSA:1.10.10.609.3E-2794140IPR009057Homeodomain-like
SMARTSM007171.9E-14138186IPR001005SANT/Myb domain
PROSITE profilePS5129418.455138188IPR017930Myb domain
PfamPF002492.7E-14139182IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.601.5E-21141188IPR009057Homeodomain-like
CDDcd001675.86E-11141181No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 912 aa     Download sequence    Send to blast
MKPEMKAPNV KEGGSQGNLQ GKHGRTCGPT RRSTKGQWTP EEDEVLCKAV ERFQGKNWKK  60
IAECVKDRTD VQCLHRWQKV LNPELVKGPW SKEEDNTIIA LVEKYGPSKW STISQHLPGR  120
IGKQCRERWH NHLNPGINKN AWTQEEELTL IRAHQIYGNK WAELMKFLPG RSDNAIKNHW  180
NSAVKKKLDS YYASGLLDQC QSSPLVALQN RSVASSSSLM HSSGDESNFR QGADAEESEC  240
SQASTVFSCS QSNNDLLDEV KPPNEEFYIP ELLSGLEQQV SNSPSHAESY CPSFEDVKIV  300
VPEVRTTTAT EDHLQGVSNN VRQDLSLDCP QLLAHNMDGD EKNEACQAFQ DSVKLSDQPS  360
LPNSDTSIHP QPQTLTTDVE CCRVLFPYAM KDNGTSSGEQ GQNMVDPPKG KGEETNAHET  420
GNIPALSWHQ SNSESLEGHN GVTLLYSAVE DSVLLHNDSA QDCDLLGATA LERETDTNDG  480
NDDNDGIPES YITKDFLKLV PLNNFASPSR VNKIHFPIDE KPAEKDKGSL CYEPPRFPSA  540
DIPFFSCDLV PSNSDLRQEY SPFGIRQLMN CTTPLRLWDS PRHDKSPDVK SFSGAPSILK  600
KRRGDLLLSP MLDRRKEKMV KSAKASSLAL DFSRLDDCNK NKRASSSEAK EDPNETLESG  660
GVSSAKTDQE TRRSLVYYND VGMQVSSPDK AGSRLDNKVN TVAKDPSDQH EKSLATIPTE  720
EISSEPPFTA DEIPLSVISG IKTNTAESSV DIETFSIFDG TPFKKLLDTP SPWKSSPWKS  780
PLLFGSFLQS QNLDPDITLE DIGCFMSPGE RSYDAIGLMK HLSEHTATAY ADALEVLGND  840
TPETILKKRR LNKSIQGKEN QHWPHDQLEN RSQVEGRALD FSNCGTPGKA KVSSASPGSY  900
SSPSSYLLKS CR
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1h88_C4e-66351886159MYB PROTO-ONCOGENE PROTEIN
1h89_C4e-66351886159MYB PROTO-ONCOGENE PROTEIN
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Accumulates in the columella root cap. Also present in floral organs in young flower buds. Strongly expressed in vascular tissues of filaments and anthers. Weakly and uniformly present in the developing embryo and maternal tissues (PubMed:17287251). Expressed both in proliferating and maturing stages of leaves (PubMed:26069325). {ECO:0000269|PubMed:17287251, ECO:0000269|PubMed:26069325}.
UniprotTISSUE SPECIFICITY: Expressed ubiquitously at low levels (PubMed:10743663). Expressed in roots, cotyledons, flowers and leaves, especially in vascular tissues (PubMed:17287251). {ECO:0000269|PubMed:10743663, ECO:0000269|PubMed:17287251}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that binds 5'-AACGG-3' motifs in gene promoters (PubMed:21862669). Transcription activator involved in the regulation of cytokinesis, probably via the activation of several G2/M phase-specific genes transcription (e.g. KNOLLE) (PubMed:17287251, PubMed:21862669). 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). Required for the maintenance of diploidy (PubMed:21862669). {ECO:0000269|PubMed:17287251, ECO:0000269|PubMed:21862669, ECO:0000269|PubMed:26069325}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009125538.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Constant levels during cell cycle. Activated by CYCB1. {ECO:0000269|PubMed:17287251}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAF1516460.0AF151646.1 Arabidopsis thaliana PC-MYB1 (PC-MYB1) mRNA, complete cds.
GenBankAF1760050.0AF176005.2 Arabidopsis thaliana putative c-myb-like transcription factor (AtMYB3R-1) mRNA, complete cds.
GenBankAF1897840.0AF189784.1 Arabidopsis thaliana putative c-myb-like transcription factor (MYB3R-1) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009125531.10.0PREDICTED: myb-related protein 3R-1-like
RefseqXP_009125538.10.0PREDICTED: myb-related protein 3R-1-like
RefseqXP_022552027.10.0transcription factor MYB3R-1-like
RefseqXP_022552043.10.0transcription factor MYB3R-1-like
SwissprotQ9S7G70.0MB3R1_ARATH; Transcription factor MYB3R-1
TrEMBLM4D4H20.0M4D4H2_BRARP; Uncharacterized protein
STRINGBra011376.1-P0.0(Brassica rapa)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G32730.20.0Homeodomain-like protein
Publications ? help Back to Top
  1. Kobayashi K, et al.
    Transcriptional repression by MYB3R proteins regulates plant organ growth.
    EMBO J., 2015. 34(15): p. 1992-2007
    [PMID:26069325]