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_009109211.1
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: 219aa    MW: 25303.3 Da    PI: 9.0397
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009109211.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF86.41.7e-27959151
                    S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
          SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                    krie+ + r+vtfskRr+g+lKKA+ELSvLCda+va i+fs++g+ly+++s
  XP_009109211.1  9 KRIEDVTSRHVTFSKRRKGLLKKAHELSVLCDAQVAAIVFSQKGRLYDFAS 59
                    79***********************************************86 PP
2K-box523.1e-18831779100
           K-box   9 leeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkk...ekelqeenkaLrkklee 100
                     ++++  + l++e+a   ++i+ Lq   R+l+G+dL+s+s++eL+++ +++eksl+ +Rs+K +l  + ie+l+     e+e+ +++ +Lr+++ee
  XP_009109211.1  83 QKQQYVQDLKNEMAITMDKIKLLQLHCRKLMGQDLDSCSVEELKEITTKIEKSLTIVRSRKAKLNEDRIEKLKAEivaEREVLNDKSRLRQMFEE 177
                     46677899****************999**********************************************8544489999999999999886 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004321.2E-38160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006630.852161IPR002100Transcription factor, MADS-box
PRINTSPR004043.7E-28323IPR002100Transcription factor, MADS-box
CDDcd002651.13E-37368No hitNo description
SuperFamilySSF554553.27E-29370IPR002100Transcription factor, MADS-box
PfamPF003191.7E-241057IPR002100Transcription factor, MADS-box
PRINTSPR004043.7E-282338IPR002100Transcription factor, MADS-box
PRINTSPR004043.7E-283859IPR002100Transcription factor, MADS-box
PfamPF014862.7E-1785175IPR002487Transcription factor, K-box
PROSITE profilePS5129712.07488181IPR002487Transcription 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: 219 aa     Download sequence    Send to blast
MVRGKIEIKR IEDVTSRHVT FSKRRKGLLK KAHELSVLCD AQVAAIVFSQ KGRLYDFASS  60
DMQKMIERCE IHRGEYFGAE RLQKQQYVQD LKNEMAITMD KIKLLQLHCR KLMGQDLDSC  120
SVEELKEITT KIEKSLTIVR SRKAKLNEDR IEKLKAEIVA EREVLNDKSR LRQMFEEQPL  180
WIQSRSLESE KSAPSCSCGN MNLSDVETDL SIGLPQSRV
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A6e-18166166MEF2C
5f28_B6e-18166166MEF2C
5f28_C6e-18166166MEF2C
5f28_D6e-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
PlantRegMapXP_009109211.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1893092e-96AC189309.2 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_009109211.11e-159PREDICTED: MADS-box protein AGL71-like
RefseqXP_009109212.11e-159PREDICTED: MADS-box protein AGL71-like
RefseqXP_013656515.11e-159MADS-box protein AGL71
RefseqXP_018509436.11e-159PREDICTED: MADS-box protein AGL71-like
SwissprotQ9FLH53e-72AGL72_ARATH; MADS-box protein AGL72
TrEMBLA0A078ISC41e-158A0A078ISC4_BRANA; BnaA08g30890D protein
STRINGBo8g050720.11e-151(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
AT5G51860.23e-70MIKC_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]