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 Araha.17932s0004.1.p
Organism
Arabidopsis halleri
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Family MIKC_MADS
Protein Properties Length: 170aa    MW: 20270.4 Da    PI: 10.0872
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Araha.17932s0004.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF91.73.7e-29959151
                          S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
                SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                          k+ien + rqvtfskRrng+lKKA+ELSvLCda+ ++iifs++g+lye+ss
  Araha.17932s0004.1.p  9 KKIENATSRQVTFSKRRNGLLKKAYELSVLCDAQLSLIIFSQRGRLYEFSS 59
                          68***********************************************96 PP
2K-box65.51.9e-2278170597
                 K-box   5 sgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenka 93 
                           ++++ ++   ++l+qe++ +  +i+ L+  +R+llG++++ +sl+eLq++ +qL+ksl ++R++K +l++eq+e+l+ kek+l een +
  Araha.17932s0004.1.p  78 TSNHDSQIYLQELKQEASHMITKIDHLEFHKRKLLGQEIDFCSLEELQEIDSQLQKSLGRVRERKAQLFKEQVEKLKAKEKQLLEENVK 166
                           33335667789*****************999********************************************************** PP

                 K-box  94 Lrkk 97 
                           L++k
  Araha.17932s0004.1.p 167 LHRK 170
                           *987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004321.1E-39160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006631.959161IPR002100Transcription factor, MADS-box
SuperFamilySSF554554.58E-33384IPR002100Transcription factor, MADS-box
PRINTSPR004041.0E-30323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
CDDcd002654.26E-42378No hitNo description
PfamPF003194.1E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004041.0E-302338IPR002100Transcription factor, MADS-box
PRINTSPR004041.0E-303859IPR002100Transcription factor, MADS-box
PfamPF014862.6E-2287170IPR002487Transcription factor, K-box
PROSITE profilePS5129713.1387170IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009838Biological Processabscission
GO:0009909Biological Processregulation of flower development
GO:0010150Biological Processleaf senescence
GO:0080187Biological Processfloral organ senescence
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: 170 aa     Download sequence    Send to blast
MVRGKIEMKK IENATSRQVT FSKRRNGLLK KAYELSVLCD AQLSLIIFSQ RGRLYEFSSS  60
DMQKTIERYR KYTKDHETSN HDSQIYLQEL KQEASHMITK IDHLEFHKRK LLGQEIDFCS  120
LEELQEIDSQ LQKSLGRVRE RKAQLFKEQV EKLKAKEKQL LEENVKLHRK
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tqe_P2e-22182183Myocyte-specific enhancer factor 2B
1tqe_Q2e-22182183Myocyte-specific enhancer factor 2B
1tqe_R2e-22182183Myocyte-specific enhancer factor 2B
1tqe_S2e-22182183Myocyte-specific enhancer factor 2B
5f28_A2e-22182183MEF2C
5f28_B2e-22182183MEF2C
5f28_C2e-22182183MEF2C
5f28_D2e-22182183MEF2C
6c9l_A2e-22182183Myocyte-specific enhancer factor 2B
6c9l_B2e-22182183Myocyte-specific enhancer factor 2B
6c9l_C2e-22182183Myocyte-specific enhancer factor 2B
6c9l_D2e-22182183Myocyte-specific enhancer factor 2B
6c9l_E2e-22182183Myocyte-specific enhancer factor 2B
6c9l_F2e-22182183Myocyte-specific enhancer factor 2B
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1135143GRVRERKAQ
Functional Description ? help Back to Top
Source Description
UniProtMADS-box transcription factor that acts with AGL71 and AGL72 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 (PubMed:21609362). Plays a role in controlling flower organ senescence and abscission by repressing ethylene responses and regulating the expression of BOP2 and IDA (PubMed:21689171). {ECO:0000269|PubMed:21609362, ECO:0000269|PubMed:21689171}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00576DAPTransfer from AT5G62165Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapAraha.17932s0004.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY0542200.0AY054220.1 Arabidopsis thaliana At2g45660/F17K2.19 mRNA, complete cds.
GenBankAY0652060.0AY065206.1 Arabidopsis thaliana unknown protein (At5g62165) mRNA, complete cds.
GenBankAY0660350.0AY066035.1 Arabidopsis thaliana At2g45660/F17K2.19 mRNA, complete cds.
GenBankAY0965090.0AY096509.1 Arabidopsis thaliana unknown protein (At5g62165) mRNA, complete cds.
GenBankAY1412130.0AY141213.1 Arabidopsis thaliana MADS-box protein AGL42 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_020877745.11e-111MADS-box protein AGL42 isoform X1
RefseqXP_020877748.11e-111MADS-box protein AGL42 isoform X1
SwissprotQ9FIS11e-110AGL42_ARATH; MADS-box protein AGL42
TrEMBLR0EYN71e-104R0EYN7_9BRAS; Uncharacterized protein
STRINGAT5G62165.11e-108(Arabidopsis thaliana)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM7828413
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G62165.34e-99AGAMOUS-like 42