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 LOC_Os01g11550.1
Common NameLOC4325252, Os01g0213800, OsJ_000844, OSJNBa0038J17.21, PCF5
Organism
Oryza sativa subsp. japonica
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; Oryza sativa
Family TCP
Protein Properties Length: 459aa    MW: 47120.3 Da    PI: 7.2487
Description TCP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os01g11550.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1TCP112.94.5e-3587187286
               TCP   2 agkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgt...............ssssaseceaesss 79 
                       +g+kdrhsk++T++g+RdRRvRlsa++a++f+d+qd+LG+d++sk+++WL+++ak ai++l  +                ++++s++ ++s +
  LOC_Os01g11550.1  87 TGRKDRHSKVCTARGPRDRRVRLSAHTAIQFYDVQDRLGYDRPSKAVDWLIKNAKDAIDKLDVLpawqptaggagagnaAAPPSSSTHPDSAE 179
                       79**************************************************************98888888888877655555555333333 PP

               TCP  80 ssas.nss 86 
                       +s++ ++ 
  LOC_Os01g11550.1 180 NSDDqAQA 187
                       33330222 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF036341.1E-3087160IPR005333Transcription factor, TCP
PROSITE profilePS5136933.25789147IPR017887Transcription factor TCP subgroup
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009793Biological Processembryo development ending in seed dormancy
GO:0009965Biological Processleaf morphogenesis
GO:0030154Biological Processcell differentiation
GO:0045962Biological Processpositive regulation of development, heterochronic
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0020104anatomyleaf sheath
Sequence ? help Back to Top
Protein Sequence    Length: 459 aa     Download sequence    Send to blast
MGDAGGHSHH HQHGFQPQLL SFGGVGHHHH LHQFTAQPQP PAASHTRGRG GGGEIVPATT  60
TPRSRGGGGG GGGEIVAVQG GHIVRSTGRK DRHSKVCTAR GPRDRRVRLS AHTAIQFYDV  120
QDRLGYDRPS KAVDWLIKNA KDAIDKLDVL PAWQPTAGGA GAGNAAAPPS SSTHPDSAEN  180
SDDQAQAITV AHTAFDFAGG GSGGTSFLPP SLDSDAIADT IKSFFPMGGT AGGEASSSTT  240
AAQSSAMGFQ SYTPDLLSRT GSQSQELRLS LQSLPDPMFH HQQHRHGGGG GGGNGTTQQA  300
LFSGAANYSF GGGAMWATEQ QAQNQRMLPW NVPDPGGGGG AAYLFNVSQQ AAHMQAAAAA  360
LGGHQSQFFF QRGPLQSSNQ PSERGWPETV EADNQMSHHQ GGLSPSVSAA IGFAAPGIGF  420
SGFRLPARIQ GDEEHNGGGG GNGDKPPPPS SVSSASHH*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5zkt_A1e-2094147154Putative transcription factor PCF6
5zkt_B1e-2094147154Putative transcription factor PCF6
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.20660.0callus| leaf| panicle| root
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO209752520.0
Expression AtlasQ8LT07-
Functional Description ? help Back to Top
Source Description
UniProtTranscription activator. Binds the promoter core sequence 5'-GGNCC-3'. {ECO:0000269|PubMed:12000681}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00009PBMTransfer from 929286Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os01g11550.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs01g11550
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB0718050.0AB071805.1 Oryza sativa Japonica Group mRNA for transcription factor PCF5, complete cds.
GenBankAK2416580.0AK241658.1 Oryza sativa Japonica Group cDNA, clone: J065191F09, full insert sequence.
GenBankAP0031040.0AP003104.2 Oryza sativa Japonica Group genomic DNA, chromosome 1, BAC clone:OSJNBa0038J17.
GenBankAP0149570.0AP014957.1 Oryza sativa Japonica Group DNA, chromosome 1, cultivar: Nipponbare, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015634261.10.0transcription factor PCF5
SwissprotQ8LT070.0PCF5_ORYSJ; Transcription factor PCF5
TrEMBLB7F8Y40.0B7F8Y4_ORYSJ; cDNA, clone: J065191F09, full insert sequence
STRINGOS01T0213800-010.0(Oryza sativa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP58393355
Representative plantOGRP18015163
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G15030.33e-56TCP family protein
Publications ? help Back to Top
  1. Kosugi S,Ohashi Y
    DNA binding and dimerization specificity and potential targets for the TCP protein family.
    Plant J., 2002. 30(3): p. 337-48
    [PMID:12000681]