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 PGSC0003DMP400061017
Common NameLOC102578412
Organism
Solanum tuberosum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum
Family MYB
Protein Properties Length: 242aa    MW: 27609.2 Da    PI: 7.2969
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PGSC0003DMP400061017genomePGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding48.32.3e-151663148
                          TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
       Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                          +g+W+ eEd++l+  ++++G  +W++ ++  g+ R++k+c++rw +yl
  PGSC0003DMP400061017 16 KGAWSCEEDLRLITFIQKHGHQNWRSLPKQAGLLRCGKSCRLRWINYL 63
                          79******************************99************97 PP
2Myb_DNA-binding53.65e-1769114148
                           TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
       Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 
                           rg++T++E++ ++++++ +G++ W++Ia++++ gRt++++k+ w+++l
  PGSC0003DMP400061017  69 RGNFTPQEEDTIIKLHQSFGNK-WSKIASHLP-GRTDNEIKNVWNTHL 114
                           89********************.*********.************986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.602.8E-23866IPR009057Homeodomain-like
PROSITE profilePS5129415.6791163IPR017930Myb domain
SuperFamilySSF466899.36E-3014110IPR009057Homeodomain-like
SMARTSM007171.0E-101565IPR001005SANT/Myb domain
PfamPF002494.0E-141663IPR001005SANT/Myb domain
CDDcd001674.83E-81863No hitNo description
PROSITE profilePS5129424.92364118IPR017930Myb domain
Gene3DG3DSA:1.10.10.608.8E-2867117IPR009057Homeodomain-like
SMARTSM007172.1E-1568116IPR001005SANT/Myb domain
PfamPF002494.5E-1669114IPR001005SANT/Myb domain
CDDcd001671.66E-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: 242 aa     Download sequence    Send to blast
MGKGRAACCD KSKVKKGAWS CEEDLRLITF IQKHGHQNWR SLPKQAGLLR CGKSCRLRWI  60
NYLRPDLKRG NFTPQEEDTI IKLHQSFGNK WSKIASHLPG RTDNEIKNVW NTHLKKRRLI  120
HSEAKLDDSS CAYNSPSSTS VLSHANTIIH EKEEAKRSCS SSYNASSSLS NLSQVEIISS  180
PNINHVDMDW IFQFNEEPNN YLELTRVLQD DGIIEIPLEC DHVDIWDMLD IMDPPLQTGH  240
E*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1gv2_A6e-25161174104MYB PROTO-ONCOGENE PROTEIN
1mse_C6e-25161174104C-Myb DNA-Binding Domain
1msf_C6e-25161174104C-Myb DNA-Binding Domain
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
PlantRegMapPGSC0003DMP400061017
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Slightly induced by light (PubMed:9839469). 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:19122102, ECO:0000269|PubMed:22197883, ECO:0000269|PubMed:9839469}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006346031.10.0PREDICTED: myb-related protein Zm1-like
SwissprotQ9SA478e-76MYB58_ARATH; Transcription factor MYB58
TrEMBLM1DHZ01e-179M1DHZ0_SOLTU; Uncharacterized protein
STRINGPGSC0003DMT4000893421e-180(Solanum tuberosum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA12242154
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G16490.13e-75myb domain protein 58
Publications ? help Back to Top
  1. Xu X, et al.
    Genome sequence and analysis of the tuber crop potato.
    Nature, 2011. 475(7355): p. 189-95
    [PMID:21743474]
  2. Fernández-Pérez F,Vivar T,Pomar F,Pedreño MA,Novo-Uzal E
    Peroxidase 4 is involved in syringyl lignin formation in Arabidopsis thaliana.
    J. Plant Physiol., 2015. 175: p. 86-94
    [PMID:25506770]
  3. 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]
  4. Takeuchi M,Kegasa T,Watanabe A,Tamura M,Tsutsumi Y
    Expression analysis of transporter genes for screening candidate monolignol transporters using Arabidopsis thaliana cell suspensions during tracheary element differentiation.
    J. Plant Res., 2018. 131(2): p. 297-305
    [PMID:28921082]