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 Gh_D08G2456
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium
Family MYB
Protein Properties Length: 317aa    MW: 35519.5 Da    PI: 5.4475
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gh_D08G2456genomeNAU-NBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding50.45.1e-161663148
                     TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                     rg+W++ Ed++l+  ++++G  +W++ ++  g+ R++k+c++rw +yl
      Gh_D08G2456 16 RGPWSPSEDLRLITFIQKHGHQNWRALPKQAGLLRCGKSCRLRWINYL 63
                     89******************************99************97 PP

2Myb_DNA-binding52.51.1e-1669114148
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 
                      rg++T++E++ +++a++ lG++ W++Ia++++ gRt++++k+ w+++l
      Gh_D08G2456  69 RGNFTKDEEDTIIRAHATLGNK-WSKIASYLP-GRTDNEIKNVWNTHL 114
                      89********************.*********.************986 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.607.3E-24766IPR009057Homeodomain-like
PROSITE profilePS5129416.0221163IPR017930Myb domain
SuperFamilySSF466893.11E-2914110IPR009057Homeodomain-like
SMARTSM007171.7E-121565IPR001005SANT/Myb domain
PfamPF002496.1E-151663IPR001005SANT/Myb domain
CDDcd001671.68E-91863No hitNo description
PROSITE profilePS5129424.92264118IPR017930Myb domain
Gene3DG3DSA:1.10.10.603.8E-2667118IPR009057Homeodomain-like
SMARTSM007174.2E-1568116IPR001005SANT/Myb domain
PfamPF002499.6E-1669114IPR001005SANT/Myb domain
CDDcd001671.01E-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: 317 aa     Download sequence    Send to blast
MGKGRAPCCD KEKVKRGPWS PSEDLRLITF IQKHGHQNWR ALPKQAGLLR CGKSCRLRWI  60
NYLRPDVKRG NFTKDEEDTI IRAHATLGNK WSKIASYLPG RTDNEIKNVW NTHLKKRLGS  120
MNGNADKKDE SMATSSSSSC VTSMSSFNDK KTNEAFEMAV VSDKANHGSP SEEPEALSSS  180
SISSNVTNSN QVNVSNPEIQ EGPLFNFTGC YYNTSEEVNK PETAFDIPLE SDLEFWNMLD  240
SLVPFQPEGI QSHNETQCPD FGEAENKWLL YLEQELGLDP KDGGFEAEPL LVPETNGMGT  300
LGHYHNTVQP YEPNSKQ
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1mse_C2e-27161184105C-Myb DNA-Binding Domain
1msf_C2e-27161184105C-Myb DNA-Binding Domain
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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00249DAPTransfer from AT1G79180Download
Motif logo
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
GenBankAJ4591544e-61AJ459154.1 Gossypium hirsutum partial myb125 gene, clone pGhMYB125.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_016714954.10.0PREDICTED: myb-related protein Myb4-like
SwissprotQ6R0A69e-81MYB63_ARATH; Transcription factor MYB63
TrEMBLA0A1U8LP400.0A0A1U8LP40_GOSHI; myb-related protein Myb4-like
TrEMBLA0A2P5PV650.0A0A2P5PV65_GOSBA; Uncharacterized protein
STRINGGorai.004G269400.10.0(Gossypium raimondii)
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-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]