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 RrC6861_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: 222aa    MW: 25212.9 Da    PI: 6.511
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC6861_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding37.84.5e-12142748
                     HHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding  7 eEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                     eEd++l+  ++++G ++W++ ++  g+ R++k+c++rw +yl
       RrC6861_p1  1 EEDLKLISFIQKFGHENWRSLPKQSGLLRCGKSCRLRWINYL 42
                     9*************************99************97 PP
2Myb_DNA-binding55.71.1e-174893148
                     TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                     rg++T+eE+e ++++++ +G++ W++Ia+ ++ gRt++++k+ w+++l
       RrC6861_p1 48 RGNFTAEEEETIIKLHQNYGNK-WSKIASQLP-GRTDNEIKNVWHTHL 93
                     89********************.*********.************986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.603.3E-20149IPR009057Homeodomain-like
SMARTSM007170.0011144IPR001005SANT/Myb domain
SuperFamilySSF466891.21E-25189IPR009057Homeodomain-like
CDDcd001673.27E-7142No hitNo description
PROSITE profilePS5129412.37142IPR017930Myb domain
PfamPF002492.5E-10142IPR001005SANT/Myb domain
PROSITE profilePS5129426.2314397IPR017930Myb domain
SMARTSM007173.2E-154795IPR001005SANT/Myb domain
PfamPF002494.3E-164893IPR001005SANT/Myb domain
CDDcd001675.53E-115093No hitNo description
Gene3DG3DSA:1.10.10.601.7E-285098IPR009057Homeodomain-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: 222 aa     Download sequence    Send to blast
EEDLKLISFI QKFGHENWRS LPKQSGLLRC GKSCRLRWIN YLRPDVKRGN FTAEEEETII  60
KLHQNYGNKW SKIASQLPGR TDNEIKNVWH THLKKRLVQS SATTPCSSDS VSCGKEDKSQ  120
AEGCLNTKTS QDSTTSVSSG GSNNLNQEAD PKIGLLFGHS EFKNIIQQVD KPHLLEIPFD  180
SDPDIWSFLD SSNSLQQSGA NEFRAEEESD FTTWFKAYSY FS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1gv2_A7e-2319710105MYB PROTO-ONCOGENE PROTEIN
Search in ModeBase
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}.
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}.
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC2324451e-163AC232445.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB006F18, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018443795.11e-148PREDICTED: myb-related protein Zm1-like, partial
SwissprotQ6R0A61e-105MYB63_ARATH; Transcription factor MYB63
TrEMBLA0A0D3CVU81e-137A0A0D3CVU8_BRAOL; Uncharacterized protein
STRINGBo6g081140.11e-138(Brassica oleracea)
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-102myb 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]