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 PGSC0003DMP400060311
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 M-type_MADS
Protein Properties Length: 118aa    MW: 13107.8 Da    PI: 9.9857
Description M-type_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PGSC0003DMP400060311genomePGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF80.89.2e-261459247
                          ---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEE CS
                SRF-TF  2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgkly 47
                          r++n++nrqvtfskRrng++KKA+ELS+LC+a vav+ifss++k+y
  PGSC0003DMP400060311 14 RVQNSRNRQVTFSKRRNGLFKKASELSTLCGAYVAVVIFSSRNKIY 59
                          789*****************************************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006624.698565IPR002100Transcription factor, MADS-box
SMARTSM004322.6E-30564IPR002100Transcription factor, MADS-box
SuperFamilySSF554557.19E-27778IPR002100Transcription factor, MADS-box
CDDcd002652.80E-33774No hitNo description
PRINTSPR004047.5E-22727IPR002100Transcription factor, MADS-box
PfamPF003193.5E-251460IPR002100Transcription factor, MADS-box
PRINTSPR004047.5E-222742IPR002100Transcription factor, MADS-box
PRINTSPR004047.5E-224263IPR002100Transcription factor, MADS-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 118 aa     Download sequence    Send to blast
MRGLNCRRRI TIARVQNSRN RQVTFSKRRN GLFKKASELS TLCGAYVAVV IFSSRNKIYS  60
CGHPSVEFIV DKFLGENPQP DTDASNPDTD APNPDTDAPN PIIVTHQNAY VERSIKN*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6byy_A8e-17788383MEF2 CHIMERA
6byy_B8e-17788383MEF2 CHIMERA
6byy_C8e-17788383MEF2 CHIMERA
6byy_D8e-17788383MEF2 CHIMERA
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. Required for suppression of cellularization and promotion of nuclear proliferation during early endosperm development. The FERTILIZATION-INDEPENDENT SEED (FIS) polycomb complex is required for suppression of ALG62 expression at the end of the syncytial phase of endosperm development. {ECO:0000269|PubMed:18334668}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPGSC0003DMP400060311
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHG9754465e-58HG975446.1 Solanum pennellii chromosome ch07, complete genome.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006340409.16e-76PREDICTED: agamous-like MADS-box protein AGL62
SwissprotQ9FKK25e-24AGL62_ARATH; Agamous-like MADS-box protein AGL62
TrEMBLM1DGE42e-81M1DGE4_SOLTU; Uncharacterized protein
STRINGPGSC0003DMT4000886364e-82(Solanum tuberosum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA20424223
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G60440.12e-26AGAMOUS-like 62
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. Xu W, et al.
    Endosperm and Nucellus Develop Antagonistically in Arabidopsis Seeds.
    Plant Cell, 2016. 28(6): p. 1343-60
    [PMID:27233529]
  3. Figueiredo DD,Batista RA,Roszak PJ,Köhler C
    Auxin production couples endosperm development to fertilization.
    Nat Plants, 2015. 1: p. 15184
    [PMID:27251719]
  4. Figueiredo DD,Batista RA,Roszak PJ,Hennig L,Köhler C
    Auxin production in the endosperm drives seed coat development in Arabidopsis.
    Elife, 2017.
    [PMID:27848912]
  5. Fiume E,Coen O,Xu W,Lepiniec L,Magnani E
    Growth of the Arabidopsis sub-epidermal integument cell layers might require an endosperm signal.
    Plant Signal Behav, 2017. 12(8): p. e1339000
    [PMID:28613109]
  6. Zhang S, et al.
    FERTILIZATION-INDEPENDENT SEED-Polycomb Repressive Complex 2 Plays a Dual Role in Regulating Type I MADS-Box Genes in Early Endosperm Development.
    Plant Physiol., 2018. 177(1): p. 285-299
    [PMID:29523711]