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 XP_009107084.1
Organism
Brassica rapa
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: 188aa    MW: 21782.3 Da    PI: 10.2685
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009107084.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF916e-29959151
                    S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
          SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                    k+ien++ rqvtfskRr+g++KKA+ELSvLCda+va iifs++g+ly+++s
  XP_009107084.1  9 KKIENTTSRQVTFSKRRKGLFKKAHELSVLCDAQVAAIIFSQKGRLYDFAS 59
                    68***********************************************86 PP
2K-box50.77.9e-18851511177
           K-box  11 eakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqi 77 
                     e+  + l++e+  + ++ie+L+  +R+l+G++L s+s+keLq++ +q+eksl  +Rs+K++ l+++ 
  XP_009107084.1  85 EQYVQGLKKEMVTMVEKIEMLEVHNRKLMGQNLASCSVKELQEIATQIEKSLHIVRSRKERELKDER 151
                     6778999***************999***********************************9999875 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004322.1E-40160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006631.314161IPR002100Transcription factor, MADS-box
PRINTSPR004043.6E-29323IPR002100Transcription factor, MADS-box
SuperFamilySSF554552.75E-31387IPR002100Transcription factor, MADS-box
CDDcd002659.94E-40373No hitNo description
PfamPF003192.5E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004043.6E-292338IPR002100Transcription factor, MADS-box
PRINTSPR004043.6E-293859IPR002100Transcription factor, MADS-box
PROSITE profilePS512979.46488188IPR002487Transcription factor, K-box
PfamPF014862.7E-1588150IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009909Biological Processregulation of flower development
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: 188 aa     Download sequence    Send to blast
MVRGKIQIKK IENTTSRQVT FSKRRKGLFK KAHELSVLCD AQVAAIIFSQ KGRLYDFASS  60
DIQKTIKRYA EYKTEYFVAE SHPMEQYVQG LKKEMVTMVE KIEMLEVHNR KLMGQNLASC  120
SVKELQEIAT QIEKSLHIVR SRKERELKDE RVRLCGRVGE RPMGTPSSSK EKEDVETDLV  180
IGFPKSRR
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A8e-21193190MEF2C
5f28_B8e-21193190MEF2C
5f28_C8e-21193190MEF2C
5f28_D8e-21193190MEF2C
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bra.241421e-123flower| root
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
PlantRegMapXP_009107084.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009107084.11e-136PREDICTED: MADS-box protein AGL72 isoform X2
SwissprotQ9FLH51e-108AGL72_ARATH; MADS-box protein AGL72
TrEMBLM4EHL71e-131M4EHL7_BRARP; Uncharacterized protein
STRINGBra028282.1-P1e-132(Brassica rapa)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G51860.21e-114MIKC_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]