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_009132365.1
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: 255aa    MW: 29092.7 Da    PI: 9.8087
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009132365.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF99.81.1e-312575151
                    S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
          SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                    krien++nrqvtf+kRrng+lKKA+ELSvLCdaeva+i+fss+g+lyeys+
  XP_009132365.1 25 KRIENTTNRQVTFCKRRNGLLKKAYELSVLCDAEVALIVFSSRGRLYEYSN 75
                    79***********************************************95 PP
2K-box98.21.2e-32921923100
           K-box   3 kssgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkk...ekelqeenkaL 94 
                     +s++ s++e +a+++qqe+akL+++i ++q+++R+l+Ge ++s+s keL++Le +L++s+++iRskKnell+++i+++qk+   e +l+++n+ L
  XP_009132365.1  92 NSNTGSVAEINAQYYQQESAKLRQQIISIQNSNRQLMGETIGSMSPKELRNLEGRLDRSVNRIRSKKNELLFAEIDYMQKRsvqEVDLHNDNQLL 186
                     45555699************************************************************************85556789******* PP

           K-box  95 rkklee 100
                     r+k++e
  XP_009132365.1 187 RAKIAE 192
                     ***986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006633.3191777IPR002100Transcription factor, MADS-box
SMARTSM004328.1E-411776IPR002100Transcription factor, MADS-box
SuperFamilySSF554553.14E-331890IPR002100Transcription factor, MADS-box
CDDcd002651.06E-441891No hitNo description
PRINTSPR004046.9E-331939IPR002100Transcription factor, MADS-box
PROSITE patternPS0035001973IPR002100Transcription factor, MADS-box
PfamPF003199.7E-272673IPR002100Transcription factor, MADS-box
PRINTSPR004046.9E-333954IPR002100Transcription factor, MADS-box
PRINTSPR004046.9E-335475IPR002100Transcription factor, MADS-box
PfamPF014864.8E-25102190IPR002487Transcription factor, K-box
PROSITE profilePS5129714.943103196IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0048366Biological Processleaf development
GO:0048440Biological Processcarpel development
GO:0048443Biological Processstamen development
GO:0048497Biological Processmaintenance of floral organ identity
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: 255 aa     Download sequence    Send to blast
MAYQMELGGE SSPQRKAGRG KIEIKRIENT TNRQVTFCKR RNGLLKKAYE LSVLCDAEVA  60
LIVFSSRGRL YEYSNNSVKG TIERYKKAIS DNSNTGSVAE INAQYYQQES AKLRQQIISI  120
QNSNRQLMGE TIGSMSPKEL RNLEGRLDRS VNRIRSKKNE LLFAEIDYMQ KRSVQEVDLH  180
NDNQLLRAKI AENERNNPSM SLMPGGSNYE QIMPPPQTQP QPFDSRNYFQ VAALQPNNHH  240
YSSAGREDQT ALQLV
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1egw_A5e-201885168MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1egw_B5e-201885168MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1egw_C5e-201885168MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1egw_D5e-201885168MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
3kov_A6e-201885168Myocyte-specific enhancer factor 2A
3kov_B6e-201885168Myocyte-specific enhancer factor 2A
3kov_I6e-201885168Myocyte-specific enhancer factor 2A
3kov_J6e-201885168Myocyte-specific enhancer factor 2A
3p57_A6e-201885168Myocyte-specific enhancer factor 2A
3p57_B6e-201885168Myocyte-specific enhancer factor 2A
3p57_C6e-201885168Myocyte-specific enhancer factor 2A
3p57_D6e-201885168Myocyte-specific enhancer factor 2A
3p57_I6e-201885168Myocyte-specific enhancer factor 2A
3p57_J6e-201885168Myocyte-specific enhancer factor 2A
6c9l_A6e-201885269Myocyte-specific enhancer factor 2B
6c9l_B6e-201885269Myocyte-specific enhancer factor 2B
6c9l_C6e-201885269Myocyte-specific enhancer factor 2B
6c9l_D6e-201885269Myocyte-specific enhancer factor 2B
6c9l_E6e-201885269Myocyte-specific enhancer factor 2B
6c9l_F6e-201885269Myocyte-specific enhancer factor 2B
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bra.154971e-132bud
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Detected early in the floral meristem but mostly expressed in stamen and carpel primordia. {ECO:0000269|PubMed:1675158}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in the control of organ identity during the early development of flowers. Is required for normal development of stamens and carpels in the wild-type flower. Plays a role in maintaining the determinacy of the floral meristem. Acts as C class cadastral protein by repressing the A class floral homeotic genes like APETALA1. Forms a heterodimer via the K-box domain with either SEPALATTA1/AGL2, SEPALATTA2/AGL4, SEPALLATA3/AGL9 or AGL6 that could be involved in genes regulation during floral meristem development. Controls AHL21/GIK, a multifunctional chromatin modifier in reproductive organ patterning and differentiation (PubMed:19956801). Induces microsporogenesis through the activation of SPL/NZZ (PubMed:15254538). {ECO:0000269|PubMed:15254538, ECO:0000269|PubMed:19956801}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00609ChIP-seqTransfer from AT4G18960Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009132365.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Negatively regulated by the A class floral homeotic protein APETALA2 and by other repressors like LEUNIG, SEUSS, SAP or CURLY LEAF. Positively regulated by both LEAFY and APETALA1. Repressed by silencing mediated by polycomb group (PcG) protein complex containing EMF1 and EMF2. Up-regulated by HUA2. {ECO:0000269|PubMed:10198637, ECO:0000269|PubMed:11058164, ECO:0000269|PubMed:1675158, ECO:0000269|PubMed:17794879, ECO:0000269|PubMed:18281509, ECO:0000269|PubMed:19783648, ECO:0000269|PubMed:9783581}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKC9843000.0KC984300.2 Brassica oleracea var. viridis AG mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009132356.10.0PREDICTED: floral homeotic protein AGAMOUS isoform X1
RefseqXP_009132388.10.0PREDICTED: floral homeotic protein AGAMOUS isoform X1
RefseqXP_013597282.10.0PREDICTED: floral homeotic protein AGAMOUS isoform X1
RefseqXP_013597300.10.0PREDICTED: floral homeotic protein AGAMOUS isoform X1
RefseqXP_013597309.10.0PREDICTED: floral homeotic protein AGAMOUS isoform X4
SwissprotP178391e-177AG_ARATH; Floral homeotic protein AGAMOUS
TrEMBLT1W0020.0T1W002_BRAOV; AG
STRINGBra013364.1-P1e-175(Brassica rapa)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G18960.11e-158MIKC_MADS family protein
Publications ? help Back to Top
  1. Huang Z, et al.
    APETALA2 antagonizes the transcriptional activity of AGAMOUS in regulating floral stem cells in Arabidopsis thaliana.
    New Phytol., 2017. 215(3): p. 1197-1209
    [PMID:27604611]
  2. Rong XF, et al.
    Type-B ARRs Control Carpel Regeneration Through Mediating AGAMOUS Expression in Arabidopsis.
    Plant Cell Physiol., 2018. 59(4): p. 756-764
    [PMID:29186581]
  3. Uemura A, et al.
    Regulation of floral meristem activity through the interaction of AGAMOUS, SUPERMAN, and CLAVATA3 in Arabidopsis.
    Plant Reprod, 2018. 31(1): p. 89-105
    [PMID:29218596]