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 PGSC0003DMP400043869
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: 112aa    MW: 12448.5 Da    PI: 10.8523
Description M-type_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PGSC0003DMP400043869genomePGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF93.11.3e-292373151
                          S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
                SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                          krien + rqvtfskRrng++KKA+ELSvLCda+va+iifs++g+l+ +ss
  PGSC0003DMP400043869 23 KRIENATSRQVTFSKRRNGVMKKAYELSVLCDAQVALIIFSQKGRLFQFSS 73
                          79***********************************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004323.1E-401574IPR002100Transcription factor, MADS-box
PROSITE profilePS5006631.4551575IPR002100Transcription factor, MADS-box
CDDcd002657.12E-381774No hitNo description
SuperFamilySSF554551.31E-281777IPR002100Transcription factor, MADS-box
PRINTSPR004045.9E-311737IPR002100Transcription factor, MADS-box
PROSITE patternPS0035001771IPR002100Transcription factor, MADS-box
PfamPF003192.5E-262471IPR002100Transcription factor, MADS-box
PRINTSPR004045.9E-313752IPR002100Transcription factor, MADS-box
PRINTSPR004045.9E-315273IPR002100Transcription 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: 112 aa     Download sequence    Send to blast
MINVYFKIDY QNKEMVRGKV EMKRIENATS RQVTFSKRRN GVMKKAYELS VLCDAQVALI  60
IFSQKGRLFQ FSSSRPRTVG LSVSRDLADI SELGWGGVAV VNHGPPARAV V*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tqe_P3e-191574160Myocyte-specific enhancer factor 2B
1tqe_Q3e-191574160Myocyte-specific enhancer factor 2B
1tqe_R3e-191574160Myocyte-specific enhancer factor 2B
1tqe_S3e-191574160Myocyte-specific enhancer factor 2B
6c9l_A3e-191574160Myocyte-specific enhancer factor 2B
6c9l_B3e-191574160Myocyte-specific enhancer factor 2B
6c9l_C3e-191574160Myocyte-specific enhancer factor 2B
6c9l_D3e-191574160Myocyte-specific enhancer factor 2B
6c9l_E3e-191574160Myocyte-specific enhancer factor 2B
6c9l_F3e-191574160Myocyte-specific enhancer factor 2B
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtMADS-box transcription factor that acts with AGL71 and AGL72 in the control of flowering time. Promotes flowering at the shoot apical and axillary meristems. Seems to act through a gibberellin-dependent pathway. Interacts genetically with SOC1 and its expression is directly regulated by SOC1 (PubMed:21609362). Plays a role in controlling flower organ senescence and abscission by repressing ethylene responses and regulating the expression of BOP2 and IDA (PubMed:21689171). {ECO:0000269|PubMed:21609362, ECO:0000269|PubMed:21689171}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPGSC0003DMP400043869
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHG9754456e-76HG975445.1 Solanum pennellii chromosome ch06, complete genome.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006340530.25e-46PREDICTED: MADS-box protein SOC1-like isoform X1
SwissprotQ9FIS11e-31AGL42_ARATH; MADS-box protein AGL42
TrEMBLM1CDC03e-76M1CDC0_SOLTU; Uncharacterized protein
STRINGPGSC0003DMT4000650606e-77(Solanum tuberosum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA4024625
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G62165.44e-34AGAMOUS-like 42
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]