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 KN540407.1_FGP003
Organism
Oryza longistaminata
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: 228aa    MW: 25953.5 Da    PI: 8.2248
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
KN540407.1_FGP003genomeBGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF79.42.5e-251059251
                       ---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
             SRF-TF  2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                       rie+   rqvtfskRr g++KKAeEL vLCda+va+++fsstgkl  ++s
  KN540407.1_FGP003 10 RIESAAARQVTFSKRRRGVFKKAEELAVLCDADVALVVFSSTGKLSQFAS 59
                       8*********************************************9986 PP
2K-box42.33.2e-15861413590
              K-box  35 qRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqee 90 
                          ++ Ge+Le Ls++eLqq+e++Le +l+++  +K++ ++++i+elq+k+++++ e
  KN540407.1_FGP003  86 DLNMRGEELEGLSVEELQQMEKNLEAGLQRVLCTKDQQFMQEISELQRKNQQQKYE 141
                        369***********************************************998765 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004325.6E-34160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006627.852161IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.57E-28374IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004042.8E-23323IPR002100Transcription factor, MADS-box
PfamPF003194.7E-241057IPR002100Transcription factor, MADS-box
CDDcd002654.46E-311375No hitNo description
PRINTSPR004042.8E-232338IPR002100Transcription factor, MADS-box
PRINTSPR004042.8E-233859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129710.31859149IPR002487Transcription factor, K-box
PfamPF014866.3E-1288141IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
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: 228 aa     Download sequence    Send to blast
MARERREIRR IESAAARQVT FSKRRRGVFK KAEELAVLCD ADVALVVFSS TGKLSQFASS  60
NMNEIIDKYT THSKNLGKTD KQPSIDLNMR GEELEGLSVE ELQQMEKNLE AGLQRVLCTK  120
DQQFMQEISE LQRKNQQQKY EEVHWREGRH PHCCSPWVKV KSACSPTTIQ ARFVPRGSLV  180
LLLAGLAERR WLDLAAPEQR TVGSGDGGVV TSEELHEARL VFADDRIW
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A2e-19173173MEF2C
5f28_B2e-19173173MEF2C
5f28_C2e-19173173MEF2C
5f28_D2e-19173173MEF2C
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor.
Cis-element ? help Back to Top
SourceLink
PlantRegMapKN540407.1_FGP003
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAP0047411e-149AP004741.3 Oryza sativa Japonica Group genomic DNA, chromosome 6, BAC clone:OSJNBb0024N18.
GenBankAP0149621e-149AP014962.1 Oryza sativa Japonica Group DNA, chromosome 6, cultivar: Nipponbare, complete sequence.
GenBankCP0126141e-149CP012614.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 6 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015641679.19e-78MADS-box transcription factor 55 isoform X2
SwissprotQ69TG56e-75MAD55_ORYSJ; MADS-box transcription factor 55
TrEMBLA0A0E0DYX12e-90A0A0E0DYX1_9ORYZ; Uncharacterized protein
STRINGOS06T0217300-014e-77(Oryza sativa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP12213697
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G22540.14e-25MIKC_MADS family protein
Publications ? help Back to Top
  1. 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]
  2. Lee S,Choi SC,An G
    Rice SVP-group MADS-box proteins, OsMADS22 and OsMADS55, are negative regulators of brassinosteroid responses.
    Plant J., 2008. 54(1): p. 93-105
    [PMID:18182025]
  3. Lee S,Jeong DH,An G
    A possible working mechanism for rice SVP-group MADS-box proteins as negative regulators of brassinosteroid responses.
    Plant Signal Behav, 2008. 3(7): p. 471-4
    [PMID:19704489]
  4. Khanday I,Yadav SR,Vijayraghavan U
    Rice LHS1/OsMADS1 controls floret meristem specification by coordinated regulation of transcription factors and hormone signaling pathways.
    Plant Physiol., 2013. 161(4): p. 1970-83
    [PMID:23449645]