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 Vradi05g19440.1
Organism
Vigna radiata
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Vigna
Family MYB
Protein Properties Length: 357aa    MW: 40431.8 Da    PI: 4.7801
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Vradi05g19440.1genomeSNUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding475.9e-151663148
                     TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                     rg+W + Ed++l+  ++++G ++W++ ++  g+ R++k+c++rw +yl
  Vradi05g19440.1 16 RGPWNPAEDLKLIAFIQKYGHENWRALPKQAGLLRCGKSCRLRWINYL 63
                     89******************************99************97 PP
2Myb_DNA-binding52.21.4e-1669114148
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 
                      rg++T+eE+e ++++++ +G++ W++Ia++++ gRt++++k+ w+++l
  Vradi05g19440.1  69 RGNFTAEEEETIIRLHRAMGNK-WSKIASRLP-GRTDNEIKNVWNTHL 114
                      89********************.*********.************986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.609.6E-24766IPR009057Homeodomain-like
PROSITE profilePS5129414.1761163IPR017930Myb domain
SuperFamilySSF466896.36E-2914110IPR009057Homeodomain-like
SMARTSM007171.1E-121565IPR001005SANT/Myb domain
PfamPF002491.1E-131663IPR001005SANT/Myb domain
CDDcd001675.65E-91863No hitNo description
PROSITE profilePS5129425.38364118IPR017930Myb domain
Gene3DG3DSA:1.10.10.603.1E-2767118IPR009057Homeodomain-like
SMARTSM007171.4E-1568116IPR001005SANT/Myb domain
PfamPF002492.7E-1569114IPR001005SANT/Myb domain
CDDcd001672.21E-1071114No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009751Biological Processresponse to salicylic acid
GO:0009753Biological Processresponse to jasmonic acid
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:2000652Biological Processregulation of secondary cell wall biogenesis
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 357 aa     Download sequence    Send to blast
MGKGRAPCCD KTKVKRGPWN PAEDLKLIAF IQKYGHENWR ALPKQAGLLR CGKSCRLRWI  60
NYLRPDVKRG NFTAEEEETI IRLHRAMGNK WSKIASRLPG RTDNEIKNVW NTHLKKRLGP  120
KKTSESSTDE SKPESTITST SSSSSQSFFS IERPNSPKST TPYNNEFCDQ LSMEDKIEKD  180
SEKAVSSELI GMTEDPKESS ASFSCESSQN VAHKPEQQLG SPSSYLGSYD VGHILEIPWE  240
PDYEFWKLLD DDDSPGSFQS KEVQLGEFSA NENIILGEEG EARKWSNDFE NEFGVVGEIK  300
ESNKDHNFLP VEPEMDHTKA FDFDDMTQAE SELDFCSIPL WLSSPQNTTL YFNTDQ*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A2e-26161187108B-MYB
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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00249DAPTransfer from AT1G79180Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapVradi05g19440.1
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
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAP0150401e-168AP015040.1 Vigna angularis var. angularis DNA, chromosome 7, almost complete sequence, cultivar: Shumari.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_014500370.10.0transcription factor MYB58
SwissprotQ6R0A64e-78MYB63_ARATH; Transcription factor MYB63
TrEMBLA0A1S3U2X30.0A0A1S3U2X3_VIGRR; transcription factor MYB58
STRINGXP_007149313.10.0(Phaseolus vulgaris)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF100293042
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G79180.12e-76myb 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]