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 RrC641_p4
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: 508aa    MW: 56690.1 Da    PI: 7.7465
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC641_p4genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding53.17.4e-1778124148
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 
                      +g WT+eEde l +av ++ g++Wk+Ia+ ++  Rt+ qc +rwqk+l
        RrC641_p4  78 KGGWTPEEDETLRQAVCKFNGKSWKKIAEFFP-DRTEVQCLHRWQKVL 124
                      688*****************************.************986 PP
2Myb_DNA-binding57.53.2e-18130176148
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 
                      +g+WT++Ede+++++vk++G+  W+ I++ ++ gR +kqc++rw+++l
        RrC641_p4 130 KGPWTQQEDEKIIELVKKYGPAKWSIISNSLP-GRIGKQCRERWHNHL 176
                      79******************************.*************97 PP
3Myb_DNA-binding57.72.6e-18182225146
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 
                      +++WT+eE++ l +a++ +G++ W+ Ia+ ++ gRt++++k++w++
        RrC641_p4 182 KDAWTPEEELALMNAHRVHGNK-WAEIAKVLP-GRTDNSIKNHWNS 225
                      679*******************.*********.***********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129415.1673124IPR017930Myb domain
SuperFamilySSF466891.36E-1675133IPR009057Homeodomain-like
SMARTSM007177.3E-1477126IPR001005SANT/Myb domain
PfamPF002491.9E-1578124IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.601.2E-2280136IPR009057Homeodomain-like
CDDcd001671.58E-1281124No hitNo description
PROSITE profilePS5129431.46125180IPR017930Myb domain
SuperFamilySSF466895.87E-32127223IPR009057Homeodomain-like
SMARTSM007172.7E-17129178IPR001005SANT/Myb domain
PfamPF002494.2E-17130176IPR001005SANT/Myb domain
CDDcd001671.94E-14132176No hitNo description
Gene3DG3DSA:1.10.10.605.5E-26137183IPR009057Homeodomain-like
PROSITE profilePS5129422.885181231IPR017930Myb domain
SMARTSM007176.8E-17181229IPR001005SANT/Myb domain
PfamPF002491.2E-16182225IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.601.7E-23184230IPR009057Homeodomain-like
CDDcd001678.99E-13184227No 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: 508 aa     Download sequence    Send to blast
MSCDLNPPAS SPDKEVKMEK ECVENKQSRA AADASCSSVS EGSGGSSSTF LKSPAAVASP  60
ATVSPTHRRT SGPIRRAKGG WTPEEDETLR QAVCKFNGKS WKKIAEFFPD RTEVQCLHRW  120
QKVLNPDLIK GPWTQQEDEK IIELVKKYGP AKWSIISNSL PGRIGKQCRE RWHNHLNPGI  180
NKDAWTPEEE LALMNAHRVH GNKWAEIAKV LPGRTDNSIK NHWNSSLKKK SEFFLANGGL  240
PTNRVPDSAT KRPVYLHRRD SVSVAQTSSG TTQINKLDGE GKEQLNSSLP LEEVSPMAGF  300
EEYVRSSQLP KPEPSPENGY HLNDKKPQTE DHMASAADKQ RMYGYECGCS PSASSPVIFF  360
TPPPPSRKEY SSNGSAPRSP ETFLREAART FPNTPSIFRK RRRKVVVVED NNRTDEEEEE  420
AAKEVVDDGK VNGISERADC EEEKENSGSN AYNLSPPYRI RSKRTAVFKS RQLEFISPEE  480
EKVDDETKSS EKDKLFDGGD SQVSGQEK
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1h88_C3e-68772305158MYB PROTO-ONCOGENE PROTEIN
1h89_C3e-68772305158MYB PROTO-ONCOGENE PROTEIN
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1398402RKRRR
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}.
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-147AF214117.2 Arabidopsis thaliana putative c-myb-like transcription factor (MYB3R3) mRNA, complete cds.
GenBankAY1426491e-147AY142649.1 Arabidopsis thaliana putative MYB family transcription factor (At3g09370) mRNA, complete cds.
GenBankAY5196511e-147AY519651.1 Arabidopsis thaliana MYB transcription factor (At3g09370) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018434466.10.0PREDICTED: transcriptional activator Myb-like
SwissprotQ8H1P90.0MB3R3_ARATH; Transcription factor MYB3R-3
TrEMBLA0A0D3AEW80.0A0A0D3AEW8_BRAOL; Uncharacterized protein
STRINGBo1g144510.10.0(Brassica oleracea)
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]