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_013596969.1
Organism
Brassica oleracea
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: 25304.1 Da    PI: 7.891
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_013596969.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF92.42.1e-29959151
                    S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
          SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                    krien++ rq+tfskRr+g+lKKA+ELSvLCda+va i+fs++gklye++s
  XP_013596969.1  9 KRIENQTSRQITFSKRRKGLLKKAHELSVLCDAQVAAIVFSQKGKLYEFAS 59
                    79***********************************************86 PP
2K-box49.32.1e-17831779100
           K-box   9 leeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkk...ekelqeenkaLrkklee 100
                     +ee + + l++e++ + + ie L+   R+l+G+ L+s+s+ eL+++  q+eksl+ iRs+K ++  e++ +l+      +el +e ++L++++ee
  XP_013596969.1  83 QEEDDVQDLKNEVTVMVNSIELLRLHCRKLMGQYLGSCSVDELNEITIQIEKSLTLIRSRKAKVHEEEVGKLKAEiagTRELVNERTTLHEMFEE 177
                     678899******************999*********************************************98633357888888888888775 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006631.819161IPR002100Transcription factor, MADS-box
SMARTSM004325.3E-41160IPR002100Transcription factor, MADS-box
PRINTSPR004041.5E-30323IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.24E-30370IPR002100Transcription factor, MADS-box
CDDcd002654.85E-39367No hitNo description
PfamPF003195.0E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004041.5E-302338IPR002100Transcription factor, MADS-box
PRINTSPR004041.5E-303859IPR002100Transcription factor, MADS-box
PfamPF014863.1E-1783175IPR002487Transcription factor, K-box
PROSITE profilePS5129710.11188181IPR002487Transcription 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 IENQTSRQIT FSKRRKGLLK KAHELSVLCD AQVAAIVFSQ KGKLYEFASS  60
DMKKMMEQCE IYRSGYFHAE RLQEEDDVQD LKNEVTVMVN SIELLRLHCR KLMGQYLGSC  120
SVDELNEITI QIEKSLTLIR SRKAKVHEEE VGKLKAEIAG TRELVNERTT LHEMFEEKPL  180
WMKSRSLESK NNASSSSAFE NMNISDVETD LCIGLPRSQV
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A4e-19166166MEF2C
5f28_B4e-19166166MEF2C
5f28_C4e-19166166MEF2C
5f28_D4e-19166166MEF2C
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_013596969.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC2325424e-63AC232542.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrH005L20, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013596968.11e-161PREDICTED: MADS-box protein SOC1-like
RefseqXP_013596969.11e-161PREDICTED: MADS-box protein SOC1-like
SwissprotQ9FLH51e-66AGL72_ARATH; MADS-box protein AGL72
TrEMBLA0A3P6F1P61e-139A0A3P6F1P6_BRAOL; Uncharacterized protein
STRINGBra012957.1-P1e-137(Brassica rapa)
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]