PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID XP_009106637.1
Organism
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: 270aa    MW: 30936.3 Da    PI: 5.1535
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009106637.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding52.11.5e-161663148
                     TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                     rg+W++eEd++l+  ++++G ++W++ ++  g+ R++k+c++rw +yl
   XP_009106637.1 16 RGPWSPEEDLKLISFIQKFGHENWRSLPKQSGLLRCGKSCRLRWINYL 63
                     89******************************99************97 PP

2Myb_DNA-binding521.6e-1669114148
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 
                      rg++++eE+e +++ ++ +G++ W++Ia++++ gRt++++k+ w+++l
   XP_009106637.1  69 RGNFSAEEEEMIIKFHQSYGNK-WSKIASKLP-GRTDNEIKNVWHTHL 114
                      89********************.*********.************986 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.605.9E-24766IPR009057Homeodomain-like
PROSITE profilePS5129414.4911163IPR017930Myb domain
SuperFamilySSF466897.7E-3014110IPR009057Homeodomain-like
SMARTSM007177.3E-131565IPR001005SANT/Myb domain
PfamPF002494.3E-151663IPR001005SANT/Myb domain
CDDcd001672.12E-91863No hitNo description
PROSITE profilePS5129425.47764118IPR017930Myb domain
Gene3DG3DSA:1.10.10.603.9E-2767119IPR009057Homeodomain-like
SMARTSM007172.6E-1568116IPR001005SANT/Myb domain
PfamPF002497.0E-1569114IPR001005SANT/Myb domain
CDDcd001672.64E-1071114No 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: 270 aa     Download sequence    Send to blast
MGKGRAPCCD KTKVHRGPWS PEEDLKLISF IQKFGHENWR SLPKQSGLLR CGKSCRLRWI  60
NYLRPDVKRG NFSAEEEEMI IKFHQSYGNK WSKIASKLPG RTDNEIKNVW HTHLKKRLVK  120
SSASPDEPAS PCSSDKTQAE DCLNIKTTRD STTSASSGGS NNSNQEDDPN ISLMFEYSQF  180
NDIIEEVDKP DLLEIPFDSD LDIWSFLDAP NENSSVSRGE EECDEDEVKK WLKHLENELG  240
LEEDDNHQHH KEGAQDKDSS LLKTYELMIH
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A2e-25161187108B-MYB
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: In nonelongating internodes, highly expressed in interfascicular fibers and xylem cells but not in parenchymatous pith cells. In elongating internodes, predominantly expressed in interfascicular fibers. Accumulates in the developing secondary xylem of roots. {ECO:0000269|PubMed:19122102}.
UniprotTISSUE SPECIFICITY: Expressed at low levels in stems, roots and siliques (PubMed:9839469). Specifically expressed in fibers and vessels undergoing secondary wall thickening, especially in inflorescence stems (PubMed:19122102). {ECO:0000269|PubMed:19122102, ECO:0000269|PubMed:9839469}.
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional activator that binds DNA to the AC cis-elements 5'-ACCTACC-3', 5'-ACCAACC-3' and 5'-ACCTAAC-3' of promoters and specifically activates lignin biosynthetic genes during secondary wall formation mediated by SND1. {ECO:0000269|PubMed:19122102}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009106637.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Slightly induced by UV light (PubMed:9839469). Triggered by salicylic acid and jasmonic acid (PubMed:16463103). Regulated by the SND1 close homologs NST1, NST2, VND6, and VND7 and their downstream targets MYB46 and MYB83 (PubMed:19122102, PubMed:22197883). {ECO:0000269|PubMed:16463103, ECO:0000269|PubMed:19122102, ECO:0000269|PubMed:22197883, ECO:0000269|PubMed:9839469}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1892090.0AC189209.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB007M04, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009106637.10.0PREDICTED: myb-related protein Zm1
SwissprotQ6R0A61e-132MYB63_ARATH; Transcription factor MYB63
TrEMBLM4F2000.0M4F200_BRARP; Uncharacterized protein
STRINGBra035097.1-P0.0(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
AT1G79180.11e-119myb domain protein 63
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. Noda S, et al.
    The expression of a rice secondary wall-specific cellulose synthase gene, OsCesA7, is directly regulated by a rice transcription factor, OsMYB58/63.
    Planta, 2015. 242(3): p. 589-600
    [PMID:26070439]
  3. Vargas L, et al.
    Improving total saccharification yield of Arabidopsis plants by vessel-specific complementation of caffeoyl shikimate esterase (cse) mutants.
    Biotechnol Biofuels, 2016. 9: p. 139
    [PMID:27390589]