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 OB02G27300.1
Common NameLOC102710271
Organism
Oryza brachyantha
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: 873aa    MW: 96493.8 Da    PI: 9.3787
Description Trihelix family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OB02G27300.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1trihelix71.31.8e-22781861186
      trihelix   1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqle 86 
                   +W+ +e++ Li++r em+e++++ k ++ lWee+s+ m  +g++rsp qCk+ w +l ++y++ k+ e++     ++t+pyf +++
  OB02G27300.1 781 KWKPEEIKSLIQMRGEMNEKFQTVKGRMVLWEEISSSMLNQGISRSPAQCKSLWTSLVQKYEESKKDEES-----VKTWPYFLDMD 861
                   7*****************************************************************9998.....689******98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.60.15.101.7E-6682332IPR001279Metallo-beta-lactamase
SuperFamilySSF562818.6E-7183497IPR001279Metallo-beta-lactamase
SMARTSM008491.1E-2395292IPR001279Metallo-beta-lactamase
PfamPF127061.8E-9107242IPR001279Metallo-beta-lactamase
PfamPF075215.5E-7440469IPR011108Zn-dependent metallo-hydrolase, RNA specificity domain
PROSITE profilePS500907.77774838IPR017877Myb-like domain
Gene3DG3DSA:1.10.10.606.2E-5777840IPR009057Homeodomain-like
SMARTSM007170.0017778840IPR001005SANT/Myb domain
PfamPF138372.7E-17780862No hitNo description
CDDcd122034.14E-23780845No 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: 873 aa     Download sequence    Send to blast
MVALASLSSL CPCGLARRRS SSAASASITC CAAASPLPSA KGSQESRTPR RRVRKTEGAT  60
KSLEDSVKRK LEQFYEGLDG PPLRVLPIGG LGEIGMNCML VGNYDRYILI DAGVMFPDYD  120
EFGVQKIIPD TTFIKKWSHK IEAVIITHGH EDHIGALPWV IPALDSSTPI FASSFTMELI  180
KRRLKEFGIF LSSRLKVFRV RKRFQAGPFE VEPLRVTHSI PDCCGLVLRC ADGIIFHTGD  240
WKIDESPVDG KNFDRQALEE LSKEGVTLMM SDSTNVLSPG RSISESVVAG SLLRHISEAK  300
GRVITTQFAS NIHRIGSIKA AADLTGRKMV FVGMSLRTYL DAAFRDGKSP IDPSTLVKVE  360
DMDAYAPKDL LVVTTGSQAE PRAALNLASF GGSHALKLSK EDVLLYSAKV IPGNESRVMK  420
MLNRLTELGP KIVMGKDAGL HTSGHAYHDE LEEVLRIVKP QHFLPVHGEL LFLKEHELLG  480
RSTGIRHTTV IKNGEMLGVS HLRNRRVLSN GFVALGKEDL RLMYSDGDKA FGTSNDLCID  540
ERFRIASDGI IFVSMEIFRP QKELASSQSG LKGKFKITTR CLWLDNGRLL DALYKAAYAA  600
LLSCPVNCPL SHMERMVSEI LRKMVRKYSG KRPDVITVAT ENTTINFVED SEGKSSGKFG  660
SFSASRHPSR GSGRGLEDND KTRPENPEGE AKEILPDVSR TTRDDATTST NGEAFFSSDL  720
HKPKTLEHFW DSFKSPTAVK IARIVNGSAQ GNKPKLSKIS IMGKDSSDPP SAPVKSSKKN  780
KWKPEEIKSL IQMRGEMNEK FQTVKGRMVL WEEISSSMLN QGISRSPAQC KSLWTSLVQK  840
YEESKKDEES VKTWPYFLDM DRVLSGQGEM ATQ
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5a0t_A5e-848364119560RIBONUCLEASE J
5a0t_B5e-848364119560RIBONUCLEASE J
5a0v_A5e-848364119560RIBONUCLEASE J
5a0v_B5e-848364119560RIBONUCLEASE 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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapOB02G27300.1
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_006647352.20.0PREDICTED: ribonuclease J isoform X1
SwissprotQ84W560.0RNJ_ARATH; Ribonuclease J
TrEMBLJ3LDL30.0J3LDL3_ORYBR; Uncharacterized protein
STRINGOB02G27300.10.0(Oryza brachyantha)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP49963542
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]