PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID PGSC0003DMP400031526
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: 355aa    MW: 41526.2 Da    PI: 5.1134
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PGSC0003DMP400031526genomePGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding53.36.2e-17163209148
                           TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
       Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 
                           +g WT eEd +l+d+v+++G + W+ Ia+ +  gR +kqc++rw+++l
  PGSC0003DMP400031526 163 KGQWTIEEDRILIDLVERFGDRKWSQIAQVLK-GRIGKQCRERWHNHL 209
                           799****************************9.*************97 PP
2Myb_DNA-binding52.51.2e-16217257345
                           SS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHH CS
       Myb_DNA-binding   3 rWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwq 45 
                            WT+eEd +l++a+++ G++ W+ Ia+++  gRt++++k++w+
  PGSC0003DMP400031526 217 LWTEEEDMILIKAHAEIGNK-WAEIAKKLA-GRTENSIKNHWN 257
                           6*******************.*********.***********8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129427.978158213IPR017930Myb domain
SMARTSM007174.6E-14162211IPR001005SANT/Myb domain
SuperFamilySSF466892.7E-30162256IPR009057Homeodomain-like
PfamPF002499.0E-16163209IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.601.6E-27164216IPR009057Homeodomain-like
CDDcd001677.07E-13166209No hitNo description
SMARTSM007173.4E-16214262IPR001005SANT/Myb domain
PROSITE profilePS5129420.284214264IPR017930Myb domain
PfamPF002494.7E-15217257IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.606.4E-22217263IPR009057Homeodomain-like
CDDcd001674.60E-12218260No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010183Biological Processpollen tube guidance
GO:0045697Biological Processregulation of synergid differentiation
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 355 aa     Download sequence    Send to blast
MEFDHSNNQD VFCTPPKDFL QDFRHLDQNF MIDMNNIYDP LFDPLSNHDD NFSSIGQDFN  60
FGYEFKPFEQ NGSASGSTLV MKNFENSTDM NYNFICNQDM KPINFNVVPD ESSCVTNTID  120
TNGTNYIYDD KEIDGRKNMK ILSSSSSMRK IGRATRNKSK SVKGQWTIEE DRILIDLVER  180
FGDRKWSQIA QVLKGRIGKQ CRERWHNHLR PDIKKDLWTE EEDMILIKAH AEIGNKWAEI  240
AKKLAGRTEN SIKNHWNATK RRQFSRRKCR TKWPRPSSIL QNYIKSLNFE KSNNNAGKST  300
EPIIEEVPAN YDNFNDEFGL DNKLFDDLEI PYELMQDGEE NHKELDLMDF DYSE*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1mse_C2e-431622633104C-Myb DNA-Binding Domain
1msf_C2e-431622633104C-Myb DNA-Binding Domain
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that binds to the motif 5'-GTAACNT-3' in the promoter of target genes (e.g. DD11 and DD18) and promotes their expression within synergid cells (e.g. in the filiform apparatus) in ovules (PubMed:16214903, PubMed:17693534, PubMed:18410484, PubMed:17937500). Required for the formation of the filiform apparatus during synergid cell differentiation in the female gametophyte (PubMed:16214903). Involved in pollen tube guidance to the micropyle (PubMed:16214903, PubMed:17937500, PubMed:23093426). {ECO:0000269|PubMed:16214903, ECO:0000269|PubMed:17693534, ECO:0000269|PubMed:17937500, ECO:0000269|PubMed:18410484, ECO:0000269|PubMed:23093426}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00442DAPTransfer from AT4G18770Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapPGSC0003DMP400031526
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHG9754420.0HG975442.1 Solanum pennellii chromosome ch03, complete genome.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_027771216.10.0transcription factor MYB98-like
SwissprotQ9S7L28e-69MYB98_ARATH; Transcription factor MYB98
TrEMBLM1BJB50.0M1BJB5_SOLTU; Uncharacterized protein
STRINGPGSC0003DMT4000466000.0(Solanum tuberosum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA31502349
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G18770.13e-71myb domain protein 98
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. Mendes MA, et al.
    Live and let die: a REM complex promotes fertilization through synergid cell death in Arabidopsis.
    Development, 2016. 143(15): p. 2780-90
    [PMID:27338615]