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 OMERI08G00420.1
Organism
Oryza meridionalis
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 B3
Protein Properties Length: 275aa    MW: 30250.6 Da    PI: 11.4046
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OMERI08G00420.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B333.47.9e-112032395692
                      TTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE.. CS
               B3  56 sgryvltkGWkeFvkangLkegDfvvFkldgrsefel 92 
                       ++yvltkGW++Fvk++gL +gD v F++   ++++l
  OMERI08G00420.1 203 EKSYVLTKGWSRFVKEKGLHAGDAVGFYRAAGKNAQL 239
                      678*************************765555555 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS510329.229143IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.103.4E-7533IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.103.4E-2697136IPR015300DNA-binding pseudobarrel domain
CDDcd100174.76E-13104231No hitNo description
SuperFamilySSF1019361.44E-8104138IPR015300DNA-binding pseudobarrel domain
SMARTSM010195.4E-8106246IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.103.4E-26170253IPR015300DNA-binding pseudobarrel domain
PfamPF023624.2E-8203241IPR003340B3 DNA binding domain
SuperFamilySSF1019367.19E-9203244IPR015300DNA-binding pseudobarrel domain
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
Sequence ? help Back to Top
Protein Sequence    Length: 275 aa     Download sequence    Send to blast
MFRNERHQRV WLGTFTGEAE AARAYSNAVT NFRPLAESDL EAAIELRFLA SRSKAEVVDM  60
LRKHTYLEEL AQNKRAFAAL SPPPPKHPAS SPPSSSSAAA AREHLFDKTV TPSDVGKLNR  120
LVIPKQHAEK HFPLPAPSPH NNLRRRRRRR RRRVQGHSPQ LRGRRREGVE ILLPPPTTTS  180
AADAAGAGGE CKGILLNFED AAEKSYVLTK GWSRFVKEKG LHAGDAVGFY RAAGKNAQLF  240
IDCKVRAKPT TAAAAAPLPA LAARRRPLSV AELAR
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A2e-2910325511126DNA-binding protein RAV1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1144152RRRRRRRRR
2145152RRRRRRRR
3146152RRRRRRR
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1307251e-150AC130725.2 Oryza sativa Japonica Group cultivar Nipponbare chromosome 5 clone P0494H05, complete sequence.
GenBankAC1359251e-150AC135925.2 Oryza sativa Japonica Group cultivar Nipponbare chromosome 5 clone P0560C03, complete sequence.
GenBankAC1364921e-150AC136492.3 Oryza sativa Japonica Group cultivar Nipponbare chromosome 5 clone P0554F08, complete sequence.
GenBankAK2433631e-150AK243363.1 Oryza sativa Japonica Group cDNA, clone: J100061M08, full insert sequence.
GenBankAP0149611e-150AP014961.1 Oryza sativa Japonica Group DNA, chromosome 5, cultivar: Nipponbare, complete sequence.
GenBankCP0126131e-150CP012613.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 5 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015637817.11e-104AP2/ERF and B3 domain-containing protein Os05g0549800
SwissprotQ6L4H41e-105Y5498_ORYSJ; AP2/ERF and B3 domain-containing protein Os05g0549800
TrEMBLA0A0E0EGP90.0A0A0E0EGP9_9ORYZ; Uncharacterized protein
STRINGOMERI08G00420.10.0(Oryza meridionalis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP45638203
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G68840.23e-57related to ABI3/VP1 2
Publications ? help Back to Top
  1. Cheng CH, et al.
    A fine physical map of the rice chromosome 5.
    Mol. Genet. Genomics, 2005. 274(4): p. 337-45
    [PMID:16261349]