PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID ORGLA01G0061900.1
Organism
Oryza glaberrima
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: 240aa    MW: 27608.2 Da    PI: 9.8095
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
ORGLA01G0061900.1genomeAGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF99.31.5e-31958150
                       S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
             SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50
                       krien++nrqvtf+kRrng+lKKA+ELSvLCdaeva+i+fss+g+lyey+
  ORGLA01G0061900.1  9 KRIENTTNRQVTFCKRRNGLLKKAYELSVLCDAEVALIVFSSRGRLYEYA 58
                       79***********************************************8 PP
2K-box88.61.2e-2977177499
              K-box   4 ssgks.leeakaeslqqelakLkkeienLq.reqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkk....ekelqe 89 
                        s++   ++e +a+++qqe++kL+++i++Lq  + R ++G++++++sl++L+q+e++Lek++ kiR++Knell++++e++qk+    e elq+
  ORGLA01G0061900.1  77 SNS-GtVAEVNAQHYQQESSKLRQQISSLQnANSRTIVGDSINTMSLRDLKQVENRLEKGIAKIRARKNELLYAEVEYMQKRiilqEVELQN 167
                        233.25999*********************9899***********************************************86666889*** PP

              K-box  90 enkaLrkkle 99 
                        +n++Lr+k+ 
  ORGLA01G0061900.1 168 DNMYLRSKVV 177
                        *******986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006634.132161IPR002100Transcription factor, MADS-box
SMARTSM004321.1E-42160IPR002100Transcription factor, MADS-box
SuperFamilySSF554553.4E-33273IPR002100Transcription factor, MADS-box
CDDcd002653.67E-46275No hitNo description
PRINTSPR004044.2E-33323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003198.8E-271057IPR002100Transcription factor, MADS-box
PRINTSPR004044.2E-332338IPR002100Transcription factor, MADS-box
PRINTSPR004044.2E-333859IPR002100Transcription factor, MADS-box
PfamPF014862.3E-2086176IPR002487Transcription factor, K-box
PROSITE profilePS5129713.69287182IPR002487Transcription 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: 240 aa     Download sequence    Send to blast
MGRGKIEIKR IENTTNRQVT FCKRRNGLLK KAYELSVLCD AEVALIVFSS RGRLYEYANN  60
SVKSTVERYK KANSDTSNSG TVAEVNAQHY QQESSKLRQQ ISSLQNANSR TIVGDSINTM  120
SLRDLKQVEN RLEKGIAKIR ARKNELLYAE VEYMQKRIIL QEVELQNDNM YLRSKVVENE  180
RGQQPLNMMG AASTSEYDHM VNNPYDSRNF LQVNIMQQPQ HYAHQLQPTT LQLGQQPAFN
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A1e-21188191MEF2C
5f28_B1e-21188191MEF2C
5f28_C1e-21188191MEF2C
5f28_D1e-21188191MEF2C
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
PlantRegMapORGLA01G0061900.1
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_015632490.11e-173MADS-box transcription factor 3 isoform X1
SwissprotQ407041e-174MADS3_ORYSJ; MADS-box transcription factor 3
TrEMBLI1NL791e-177I1NL79_ORYGL; Uncharacterized protein
STRINGORGLA01G0061900.11e-178(Oryza glaberrima)
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-100MIKC_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]