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 Pbr036910.1
Organism
Pyrus bretschneideri
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rosaceae; Maloideae; Maleae; Pyrus
Family Trihelix
Protein Properties Length: 894aa    MW: 98673.4 Da    PI: 7.9208
Description Trihelix family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pbr036910.1genomeCPETRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1trihelix70.53e-22801881186
     trihelix   1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqle 86 
                  +W+ +ev++Li++r ++ +r++  k +++lWee+s+++ + g++rsp qCk+ w +l ++yk+ k g+++r     +++pyfd+++
  Pbr036910.1 801 KWKTDEVQKLITMRGKLRSRFQVVKGRMALWEEISRNLLADGINRSPGQCKSLWASLVQKYKESKSGKRSR-----KSWPYFDEMD 881
                  7********************************************************************96.....56*******7 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.60.15.102.0E-6874324IPR001279Metallo-beta-lactamase
SuperFamilySSF562811.21E-7275489IPR001279Metallo-beta-lactamase
SMARTSM008492.0E-2687284IPR001279Metallo-beta-lactamase
PfamPF127062.1E-1199234IPR001279Metallo-beta-lactamase
PfamPF075211.6E-5430461IPR011108Zn-dependent metallo-hydrolase, RNA specificity domain
Gene3DG3DSA:1.10.10.601.2E-4793860IPR009057Homeodomain-like
PROSITE profilePS500908.084794858IPR017877Myb-like domain
PfamPF138375.5E-19799881No hitNo description
CDDcd122035.87E-20800865No 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: 894 aa     Download sequence    Send to blast
MAALGALSPC PYSLLWRPKT SNRCVSCSVG SSTATGTRRS NVRRSGRMEG PRKSMEDSVQ  60
RKMEQFYEGR EGPPIRVLPI GGLGEIGMNC MLVGNYDRYI LIDAGVMFPD FDELGVQKII  120
PDTTFIKKWS HKIEAIVITH GHEDHIGALP WVIPALDPNT PIFASSFTME LIKKRLKEHG  180
IFVPSRLRTF RTKRKFTAGP FEIEPVRVTH SIPDCCGLVL RCSDGTILHT GDWKIDESPL  240
DGRGFDREAL EELSKEGVTL MMSDSTNVLS PGRTTSESSV ADALLKHISA AKGRVITTQF  300
ASNIHRLGSV KAAADFTGRK LVFVGMSLRT YLDAAWKDGK APIDPSSLVK VEDIDSYAPK  360
DLLIVTTGSQ AEPRAALNLA SFGSSHSVKL NKEDIILYSA KVIPGNESRV MKMLNRISDL  420
GSTIVMGKNE GLHTSGHGYR GELEEVLQIV KPQHFLPIHG ELLFLKEHEL LGRSTGIHHT  480
TVIKNGEMLG VSHLRNRRVL SNGFTLLGKE NLQLKFSDGD KAFGTSSDLC VDERLRIALD  540
GIIVVSMEIL RPQNVNGSTE NSIKGKIKIT TRCLWLDKGK LIDALYKAAH AALSSCPISC  600
PLPHMERTVS EILRKLVRKY SGKRPDVIAI AMENPAAVHA DEVSARLSGK SYVGSEVSQL  660
RKLYDQHQIK SPSTRTQADD GKANTHFPSQ STTTQADEGK DNTLQSISQQ DTEESVLEDD  720
GIEVEGLLPE EDSATSSSKP EKLSSDSEDL EDFWNAMVRL STGDKSVEDE NGLVAEQENP  780
QKDGPESSEI PNLSKPVKRN KWKTDEVQKL ITMRGKLRSR FQVVKGRMAL WEEISRNLLA  840
DGINRSPGQC KSLWASLVQK YKESKSGKRS RKSWPYFDEM DGALSDSEEL ATK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5a0t_A6e-897563319560RIBONUCLEASE J
5a0t_B6e-897563319560RIBONUCLEASE J
5a0v_A6e-897563319560RIBONUCLEASE J
5a0v_B6e-897563319560RIBONUCLEASE 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
PlantRegMapPbr036910.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By light. {ECO:0000269|PubMed:25871650}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009359453.10.0PREDICTED: uncharacterized protein LOC103950027 isoform X1
SwissprotQ84W560.0RNJ_ARATH; Ribonuclease J
TrEMBLA0A498I1Y30.0A0A498I1Y3_MALDO; Uncharacterized protein
STRINGXP_009359453.10.0(Pyrus x bretschneideri)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF50993450
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]