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 OB01G16550.1
Organism
Oryza brachyantha
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza
Family MIKC_MADS
Protein Properties Length: 259aa    MW: 29039.6 Da    PI: 9.7993
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OB01G16550.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF99.21.7e-313180150
                  S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
        SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50
                  krien++nrqvtf+kRrng+lKKA+ELSvLCdaeva+i+fss+g+lyey+
  OB01G16550.1 31 KRIENTTNRQVTFCKRRNGLLKKAYELSVLCDAEVALIVFSSRGRLYEYA 80
                  79***********************************************8 PP
2K-box98.97.4e-331011968100
         K-box   8 s..leeakaeslqqelakLkkeienLq.reqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkklee 100
                   s  ++e  a+++qqe++kL+++i++Lq  + R ++G++++++s +eL+q+e++Lek++ kiR++Knell++++e++qk+e elq++n++Lr+k++e
  OB01G16550.1 101 SgtVAEVSAQHYQQESSKLRQQISSLQnANSRTIVGDSINTMSPRELKQVETRLEKGIAKIRARKNELLYAEVEYMQKREVELQNDNMYLRSKVAE 196
                   23589999*******************9899**************************************************************986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004321.1E-422382IPR002100Transcription factor, MADS-box
PROSITE profilePS5006634.1322383IPR002100Transcription factor, MADS-box
CDDcd002651.03E-452497No hitNo description
SuperFamilySSF554553.92E-332496IPR002100Transcription factor, MADS-box
PROSITE patternPS0035002579IPR002100Transcription factor, MADS-box
PRINTSPR004045.1E-332545IPR002100Transcription factor, MADS-box
PfamPF003191.0E-263279IPR002100Transcription factor, MADS-box
PRINTSPR004045.1E-334560IPR002100Transcription factor, MADS-box
PRINTSPR004045.1E-336081IPR002100Transcription factor, MADS-box
PfamPF014861.4E-22108194IPR002487Transcription factor, K-box
PROSITE profilePS5129713.79109200IPR002487Transcription 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: 259 aa     Download sequence    Send to blast
MAAAAGSASS AVAAAAAAGS EKMGRGKIEI KRIENTTNRQ VTFCKRRNGL LKKAYELSVL  60
CDAEVALIVF SSRGRLYEYA NNSVKSTVER YKKANSDTTN SGTVAEVSAQ HYQQESSKLR  120
QQISSLQNAN SRTIVGDSIN TMSPRELKQV ETRLEKGIAK IRARKNELLY AEVEYMQKRE  180
VELQNDNMYL RSKVAENERG QQQPLNMMGA ASTSEYDHMV NNPYDSRNFL QVNIMQQPQH  240
YSHQMQPTTL QLGQQSAFN
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A8e-2223104185MEF2C
5f28_B8e-2223104185MEF2C
5f28_C8e-2223104185MEF2C
5f28_D8e-2223104185MEF2C
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in the development of floral organs. Acts as C-class protein in association with MADS58. Involved in the control of lodicule number (whorl 2), stamen specification (whorl 3) and floral meristem determinacy (whorl 4), but not in the regulation of carpel morphogenesis. Plays a more predominant role in controlling lodicule development and in specifying stamen identity than MADS58. {ECO:0000269|PubMed:11828031, ECO:0000269|PubMed:16326928, ECO:0000269|PubMed:9869408}.
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
PlantRegMapOB01G16550.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankRICOSMAB3A0.0L37528.1 Oryza sativa MADS-box protein (MADS3) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006643880.20.0PREDICTED: MADS-box transcription factor 3 isoform X3
SwissprotQ407041e-169MADS3_ORYSJ; MADS-box transcription factor 3
TrEMBLJ3KXE90.0J3KXE9_ORYBR; Uncharacterized protein
STRINGOB01G16550.10.0(Oryza brachyantha)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP64937144
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G18960.11e-103MIKC_MADS family protein
Publications ? help Back to Top
  1. Kyozuka J,Shimamoto K
    Ectopic expression of OsMADS3, a rice ortholog of AGAMOUS, caused a homeotic transformation of lodicules to stamens in transgenic rice plants.
    Plant Cell Physiol., 2002. 43(1): p. 130-5
    [PMID:11828031]
  2. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]