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 Potri.012G095800.1
Common NamePOPTR_0012s09780g
Organism
Populus trichocarpa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Populus
Family Trihelix
Protein Properties Length: 917aa    MW: 101174 Da    PI: 8.5903
Description Trihelix family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Potri.012G095800.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1trihelix68.41.4e-21824904186
            trihelix   1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqle 86 
                         +W+ +ev+ Li++r e+++r++  + +++lWee+s ++++ g++rsp qCk+ w +l ++y++ k+g+k++     + +pyf++++
  Potri.012G095800.1 824 KWKPEEVKSLIKMRGELHSRFQVVRGRMALWEEISTNLMADGINRSPGQCKSLWTSLVQKYEESKNGKKGK-----KAWPYFEDMD 904
                         7*******************************************************************984.....67*******8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.60.15.109.5E-70106356IPR001279Metallo-beta-lactamase
SuperFamilySSF562813.74E-72107521IPR001279Metallo-beta-lactamase
SMARTSM008494.3E-26119316IPR001279Metallo-beta-lactamase
PfamPF127068.5E-12131266IPR001279Metallo-beta-lactamase
PfamPF075211.1E-5464493IPR011108Zn-dependent metallo-hydrolase, RNA specificity domain
PROSITE profilePS500908.316817881IPR017877Myb-like domain
Gene3DG3DSA:1.10.10.602.0E-5818883IPR009057Homeodomain-like
PfamPF138375.9E-19822906No hitNo description
CDDcd122032.31E-21823888No 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: 917 aa     Download sequence    Send to blast
MQLGLLGGFS LYCTSSRKPL KTTSPNMAAA FSALSSCPYT FFCRPSSTKL CVSCSAGSPT  60
TTTIGSRGTK APPRKRTGRK EGTGKSMEDS VKRKMEQFYE GPDGPPLRIV PIGGLGEIGM  120
NCMLVGNYDR YILIDAGVMF PDYDELGVQK IIPDTTFIRR WKHKIEAVII THGHEDHIGA  180
LPWVVPALDH NTPIYASSFT MELIKKRLKE NGIFVPSRLK VFKTKRKFTA GPFEIEPIRV  240
THSIPDCCGL VLRCADGTIL HTGDWKIDES PLDGKVFDRE TLEELSKEGV TLMMSDSTNV  300
LSPGRTISES VVADALLRRI SAAKGRIITT QFASNIHRLG SVKAAADLTG RKLVFVGMSL  360
RTYLDAAWKD GKAPIDPSTL VKVEDIDSYA PKDLLIVTTG SQAEPRAALN LASYGSSHAF  420
KLNEEDVILY SAKVIPGNES RVMKMMNRIS EIGSTIVMGK NELLHTSGHG YRGELEEVLK  480
IVKPQHFLPI HGELLFLKEH ELLGKSTGIQ HTTVIKNGEM LGVSHLRNRR VLSNGFVSLG  540
KENLQLMYND GDKAFGTSTE LCIDERLKIA SDGIVVVSME ILRPQNLDGQ VEKSLKGKIK  600
ITTRCLWLDK GKLLDALHKA AHAALSSCPV NCPLTHMERT VSEMLRKMVR KYSGKRPEVI  660
AIAVENPAAV LSDELNSRLS GNSHVGFGIS ALRKIVDGHP KGNQVDRKQP DGNGYAHLEK  720
TSPQNLEVDG IEFERELPKE EGTSSSPNLA EGHSSASEDQ DDFQKSSVPS SSPVNELVKS  780
DESLVPPGEQ MNKLKEDVMD SSDDDLLENE NSRLKRSKSV KRNKWKPEEV KSLIKMRGEL  840
HSRFQVVRGR MALWEEISTN LMADGINRSP GQCKSLWTSL VQKYEESKNG KKGKKAWPYF  900
EDMDNILSDS ETMATK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5a0t_A3e-8610766519560RIBONUCLEASE J
5a0t_B3e-8610766519560RIBONUCLEASE J
5a0v_A3e-8610766519560RIBONUCLEASE J
5a0v_B3e-8610766519560RIBONUCLEASE J
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pth.120090.0bud
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: During the early stages of embryo development, first observed at the transition stage. In the heart and torpedo stages, predominantly present in the upper part of embryos. In seedlings, strongly expressed in shoot meristems, hypocotyls, in the vascular bundles of cotyledons, and in the veins of mature leaves. In reproductive organs, detected in inflorescences, especially in sepals, filaments, and stigmas, as well as in mature siliques and seeds. {ECO:0000269|PubMed:25871650}.
UniprotTISSUE SPECIFICITY: Moslty expressed in inflorescences, seedlings, leaves, flowers and flower buds, and, to a lower extent, in stems, siliques and roots. {ECO:0000269|PubMed:25871650}.
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
PlantRegMapPotri.012G095800.1
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_002318122.20.0uncharacterized protein LOC7454544 isoform X1
SwissprotQ84W560.0RNJ_ARATH; Ribonuclease J
TrEMBLB9I3P40.0B9I3P4_POPTR; Uncharacterized protein
STRINGPOPTR_0012s09780.10.0(Populus trichocarpa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF50993450
Representative plantOGRP30821521
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]