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_013609700.1
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: 175aa    MW: 20553.1 Da    PI: 10.4075
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_013609700.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF90.49.5e-29959151
                    S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
          SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                    k+ien++ rqvtfskRr+g++KKA+ELSvLCda+va iifs++g+ly++ s
  XP_013609700.1  9 KKIENTTSRQVTFSKRRKGLFKKAHELSVLCDAQVAAIIFSQKGRLYDFTS 59
                    68**********************************************975 PP
2K-box64.44.1e-22851681194
           K-box  11 eakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaL 94 
                     e+  + l++e+a + ++ie+L+  +R+l+G++L s+s+keLq++ +q++ksl  +R +K +l+ ++ie+l+ ke+el++e  +L
  XP_013609700.1  85 EQYVQGLKKEMATMVEKIEMLEVHNRKLMGQNLASCSVKELQEIATQIKKSLHIVRLRKAKLYGDEIEKLKAKERELKDERVRL 168
                     6778999***************999*****************************************************998776 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006631.202161IPR002100Transcription factor, MADS-box
SMARTSM004327.5E-40160IPR002100Transcription factor, MADS-box
SuperFamilySSF554553.14E-31387IPR002100Transcription factor, MADS-box
CDDcd002651.23E-38373No hitNo description
PRINTSPR004046.8E-29323IPR002100Transcription factor, MADS-box
PfamPF003192.2E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004046.8E-292338IPR002100Transcription factor, MADS-box
PfamPF047621.3E-529175IPR006849Elongator complex subunit Iki3
PRINTSPR004046.8E-293859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129712.22588175IPR002487Transcription factor, K-box
PfamPF014863.2E-2188171IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0002098Biological ProcesstRNA wobble uridine modification
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009909Biological Processregulation of flower development
GO:0005634Cellular Componentnucleus
GO:0033588Cellular ComponentElongator holoenzyme complex
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: 175 aa     Download sequence    Send to blast
MVRGKIQIKK IENTTSRQVT FSKRRKGLFK KAHELSVLCD AQVAAIIFSQ KGRLYDFTSS  60
DIQKTIKRYA EYKREYFVAE SHPMEQYVQG LKKEMATMVE KIEMLEVHNR KLMGQNLASC  120
SVKELQEIAT QIKKSLHIVR LRKAKLYGDE IEKLKAKERE LKDERVRLCE RGSWL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A2e-20193190MEF2C
5f28_B2e-20193190MEF2C
5f28_C2e-20193190MEF2C
5f28_D2e-20193190MEF2C
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_013609700.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY1412211e-158AY141221.1 Arabidopsis thaliana MADS-box protein AGL72 mRNA, complete cds.
GenBankDQ4470611e-158DQ447061.1 Arabidopsis thaliana clone pENTR221-At5g51860 MADS-box protein (At5g51860) mRNA, complete cds.
GenBankDQ6533601e-158DQ653360.1 Arabidopsis thaliana clone 0000017130_0000012002 unknown mRNA.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013609700.11e-126PREDICTED: MADS-box protein SOC1-like isoform X3
RefseqXP_022560414.11e-126MADS-box protein AGL72-like isoform X2
RefseqXP_022569546.11e-126MADS-box protein AGL72-like isoform X2
SwissprotQ9FLH51e-103AGL72_ARATH; MADS-box protein AGL72
TrEMBLA0A078IPP71e-123A0A078IPP7_BRANA; BnaC09g52890D protein
TrEMBLA0A0D3EA731e-123A0A0D3EA73_BRAOL; Uncharacterized protein
TrEMBLA0A3P6DJW41e-123A0A3P6DJW4_BRAOL; Uncharacterized protein
STRINGBo9g103660.11e-124(Brassica oleracea)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G51860.21e-106MIKC_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]