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 GSBRNA2T00051175001
Common NameGSBRNA2T00051175001
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family MIKC_MADS
Protein Properties Length: 220aa    MW: 25211.3 Da    PI: 9.0661
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00051175001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF87.38.4e-28959151
                         S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
               SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                         krie+ + rqvtfskRr+g+lKKA+ELSvLCda+va i+fs++g+ly+++s
  GSBRNA2T00051175001  9 KRIEDVTSRQVTFSKRRKGLLKKAHELSVLCDAQVAAIVFSQKGRLYDFAS 59
                         79***********************************************86 PP

2K-box51.15.7e-18831779100
                K-box   9 leeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkk...ekelqeenkaLr 95 
                          ++++  ++l++e+a   ++i+ Lq   R+l+G+dL s+s++eL+++ +++eksl+ +Rs+K++l  ++ie+l+     ++e+ +e+ +Lr
  GSBRNA2T00051175001  83 QKQQYVQELKNEMAITMDKIKLLQLHCRKLMGQDLYSCSVEELKEITTKIEKSLTIVRSRKTKLNEDKIEKLKAEivaQREVLNEKSSLR 172
                          5677889*****************999**********************************************86333677888889999 PP

                K-box  96 kklee 100
                          +++ee
  GSBRNA2T00051175001 173 QMFEE 177
                          98876 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006631.272161IPR002100Transcription factor, MADS-box
SMARTSM004322.7E-39160IPR002100Transcription factor, MADS-box
PRINTSPR004045.1E-29323IPR002100Transcription factor, MADS-box
CDDcd002657.45E-38367No hitNo description
SuperFamilySSF554554.58E-29370IPR002100Transcription factor, MADS-box
PfamPF003195.6E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004045.1E-292338IPR002100Transcription factor, MADS-box
PRINTSPR004045.1E-293859IPR002100Transcription factor, MADS-box
PfamPF014867.4E-1784175IPR002487Transcription factor, K-box
PROSITE profilePS5129711.82988181IPR002487Transcription factor, K-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:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 220 aa     Download sequence    Send to blast
MVRGKIEIKR IEDVTSRQVT FSKRRKGLLK KAHELSVLCD AQVAAIVFSQ KGRLYDFASS  60
DMQKMIEICE IHRGEYFGAQ RLQKQQYVQE LKNEMAITMD KIKLLQLHCR KLMGQDLYSC  120
SVEELKEITT KIEKSLTIVR SRKTKLNEDK IEKLKAEIVA QREVLNEKSS LRQMFEEHPL  180
CIQSRSLESE KSAPSCNCGN MNLSDVETDL SIGLPQSRV*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A1e-18166166MEF2C
5f28_B1e-18166166MEF2C
5f28_C1e-18166166MEF2C
5f28_D1e-18166166MEF2C
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed in the shoot apical meristem (SAM) during the vegetative phase and the floral transition. After floral transition, expressed in apical meristem (AM), inflorescence meristem (IM) and floral primordia. {ECO:0000269|PubMed:21609362}.
Functional Description ? help Back to Top
Source Description
UniProtMADS-box transcription factor that acts with AGL42 and AGL71 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. {ECO:0000269|PubMed:21609362}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00051175001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1893094e-94AC189309.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB034C07, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_022567624.11e-159MADS-box protein AGL71-like
SwissprotQ9FLH55e-69AGL72_ARATH; MADS-box protein AGL72
TrEMBLA0A078JHN01e-158A0A078JHN0_BRANA; BnaCnng49300D protein
STRINGBo8g050720.11e-152(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM88051235
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G51860.21e-65MIKC_MADS family protein
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  2. Chalhoub B, et al.
    Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome.
    Science, 2014. 345(6199): p. 950-3
    [PMID:25146293]