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 ORUFI02G20630.1
Organism
Oryza rufipogon
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 Trihelix
Protein Properties Length: 824aa    MW: 90926.3 Da    PI: 9.1373
Description Trihelix family protein
Gene Model
Gene Model ID Type Source Coding Sequence
ORUFI02G20630.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1trihelix53.75.3e-177448121386
         trihelix  13 arremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqle 86 
                      +r em+e++++ k ++ lWee+s+ m ++g++r+p qCk+ w +l ++y++ k+ e++     ++t+pyf +++
  ORUFI02G20630.1 744 MRGEMNEQFQTVKGRMVLWEEISSSMLSQGISRTPAQCKSLWTSLVQKYEESKKDEES-----VKTWPYFLDMD 812
                      789***************************************************9998.....689******98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.60.15.108.6E-4980314IPR001279Metallo-beta-lactamase
SuperFamilySSF562811.12E-5681479IPR001279Metallo-beta-lactamase
SMARTSM008495.2E-493274IPR001279Metallo-beta-lactamase
PfamPF075211.2E-6422451IPR011108Zn-dependent metallo-hydrolase, RNA specificity domain
CDDcd122034.27E-15744796No hitNo description
PfamPF138372.1E-12745813No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009658Biological Processchloroplast organization
GO:0009942Biological Processlongitudinal axis specification
GO:0060918Biological Processauxin transport
GO:0009507Cellular Componentchloroplast
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 824 aa     Download sequence    Send to blast
MVALASLSSL SPCGLARRRS ASSAASISCC AAPPPPSAKG SQESRTPRRR VRKTEGATKS  60
LEDSVKRKME QFYEGLDGPP LRVLPIGGLG EIGMNCMLVG NYDRYILIDA GVMFPDFDEF  120
GVQKIIPDTT FIKKWSHKIE AVIPALDSST PIFASSFTME LIKRRLKEFG IFLSSRLKVF  180
RVRKRFQAGP FEVEPLRVTH SIPDCCGLVL RCADGIIFHT GDWKIDESPV DGKIFDRQAL  240
EELSKEGVTL MMSDSTNVLS PGRSISESVV AGSLLRHISE AKGRVITTQF ASNIHRIGSI  300
KAAADLTGRK LVFVGMSLRT YLDAAFRDGK SPIDPSTLVK VEDMDAYAPN DLLVVTTGSQ  360
AEPRAALNLA SFGGSHALKL SKEDVLLYSA KVIPGNESRV MKMLNRLTEL GPKIVMGKDA  420
GLHTSGHAYH DELEEVLQIV KPQHFLPVHG ELLFLKEHEL LGRSTGIRHT TVIKNGEMLG  480
VSHLRNRRVL SNGFVALGKE DLRLMYSDGD KAFGTSTDLC IDERLRIASD GVIFVSMEIF  540
RPQKELASSQ SGLKGKFKIT TRCLWLDNGR LLDALYKAAY AALSSCPVNC PLSHMERMVS  600
EILRKMVRKY SGKRPDVIAV ATENTTVSFV EDSETKSSGK FGSFSAPRHS SRSSGRSLEE  660
SDKSRPENTE GEAKENLPDV LRTTRDDATT SSNGEAFFSS DLHKPKTLEH FWDSFKSPTA  720
VKIARIVNGS AQGSKSKIGK ISIMRGEMNE QFQTVKGRMV LWEEISSSML SQGISRTPAQ  780
CKSLWTSLVQ KYEESKKDEE SVKTWPYFLD MDRVLSSQGE MATQ
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5a0t_A3e-738162319560RIBONUCLEASE J
5a0t_B3e-738162319560RIBONUCLEASE J
5a0v_A3e-738162319560RIBONUCLEASE J
5a0v_B3e-738162319560RIBONUCLEASE J
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtEssential protein required during embryogenesis, especially in initiating and maintaining the organization of shoot apical meristems (SAMs), cotyledons, and hypocotyls (PubMed:15266054, PubMed:25871650). Involved in auxin-mediated pathways during embryogenesis (PubMed:25871650). RNase that has both endonuclease and 5'-3' exonuclease activities. Involved in RNA surveillance to prevent overaccumulation of antisense RNA (PubMed:22033332). Probably involved in maturation of rRNA and in some organisms also mRNA maturation and/or decay (By similarity). {ECO:0000250|UniProtKB:Q72JJ7, ECO:0000269|PubMed:15266054, ECO:0000269|PubMed:22033332, ECO:0000269|PubMed:25871650}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By light. {ECO:0000269|PubMed:25871650}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015627210.10.0ribonuclease J isoform X1
SwissprotQ84W560.0RNJ_ARATH; Ribonuclease J
TrEMBLA0A0E0NG320.0A0A0E0NG32_ORYRU; Uncharacterized protein
STRINGORGLA02G0167800.10.0(Oryza glaberrima)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G63420.10.0Trihelix family protein
Publications ? help Back to Top
  1. Bryant N,Lloyd J,Sweeney C,Myouga F,Meinke D
    Identification of nuclear genes encoding chloroplast-localized proteins required for embryo development in Arabidopsis.
    Plant Physiol., 2011. 155(4): p. 1678-89
    [PMID:21139083]
  2. Halpert M,Liveanu V,Glaser F,Schuster G
    The Arabidopsis chloroplast RNase J displays both exo- and robust endonucleolytic activities.
    Plant Mol. Biol., 2019. 99(1-2): p. 17-29
    [PMID:30511330]