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.015G093600.1
Common NamePOPTR_0015s10570g
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: 891aa    MW: 98789 Da    PI: 8.3445
Description Trihelix family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Potri.015G093600.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1trihelix62.97.2e-20798878186
            trihelix   1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqle 86 
                         +W+ +ev+ Li++r e+++r++  + +++lWee+s ++++ g++ sp qCk  w +l+k+y++ k  +k+     +++++yf++++
  Potri.015G093600.1 798 KWKPEEVKSLIKMRGELHSRFQVVRGRMALWEEISTNLMADGINHSPGQCKYLWTSLAKKYEESKSDKKS-----QKSWSYFEDMD 878
                         7***************************************************************999998.....356*******8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.60.15.101.0E-6881331IPR001279Metallo-beta-lactamase
SuperFamilySSF562819.0E-7182496IPR001279Metallo-beta-lactamase
SMARTSM008495.7E-2594291IPR001279Metallo-beta-lactamase
PfamPF127062.8E-11106241IPR001279Metallo-beta-lactamase
PfamPF075211.4E-5439468IPR011108Zn-dependent metallo-hydrolase, RNA specificity domain
PROSITE profilePS500907.248791855IPR017877Myb-like domain
PfamPF138378.5E-18796880No hitNo description
CDDcd122031.16E-18797860No hitNo description
Sequence ? help Back to Top
Protein Sequence    Length: 891 aa     Download sequence    Send to blast
MAAAFSALSI SPYTLVCRHN STKHSISCST ASPTTTTIGS RGTKAPPRHK RSERMEGAGK  60
SMEDSVKRKM EQFYEGSDGP PLRIVPIGGL GEIGMNCMLV GNFDRYILID AGVMFPDYDE  120
LGVQKIIPDT TFIRRWRHKI EAVIITHGHE DHIGALPWVI PALDHHTPIY ASSFTMELIK  180
KRLKENGIFV PSRLKVFKTK RKFAAGPFEI EPIRVTHSIP DCCGLVLRCA DGTILHTGDW  240
KIDESPLDGK KFDRETLEEL SKEGVTLMMS DSTNILSPGR TISESVVADA LLRRISAAKG  300
RIITTQFASN IHRLGSVKAA ADLTGRKMVF VGMSLRTYLD AAWKDGKAPI DPSTLVKVED  360
IDAYAPKDLL IVTTGSQAEP RAALNLASYG SSHALKLNKE DVILYSAKVI PGNESRVMKM  420
MNRISEIGST IVIGKNELLH TSGHGYRGEL EEVLKIVKPQ HFLPIHGELL FLKEHELLGK  480
STGIQHTTVI KNGEMLGVSH LRNRRVLSNG FVFLGKENLQ LMYNDGDKAF GTSTELCVDE  540
RMRIATDGIV VVSMEILRPQ NADGLVENSL KGKIKITTRC LWLDKGKLLD ALHKAAHAAL  600
SSCPVNCPLA HMERTVSEVL RKMVRKYSGK RPEVIAVAME NPAAVLSDEL NAKLSGNSHV  660
GLGISALRKM ADGHKKKIRV DRKQPDGNGY ANLEKTSTQN SEVDGFEFER ELSKEEETSS  720
SPSLAEGHSS DSENQDDFRK SFIPPSPVNE LVKSDEDLVP PWEHVNELKE DGTISSDDDS  780
LENQNSRSKG SRPVKRNKWK PEEVKSLIKM RGELHSRFQV VRGRMALWEE ISTNLMADGI  840
NHSPGQCKYL WTSLAKKYEE SKSDKKSQKS WSYFEDMDNI LSDSETMATK *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5a0t_A9e-858264019560RIBONUCLEASE J
5a0t_B9e-858264019560RIBONUCLEASE J
5a0v_A9e-858264019560RIBONUCLEASE J
5a0v_B9e-858264019560RIBONUCLEASE J
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1667683RKMADGHKKKIRVDRKQ
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.015G093600.1
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_002321691.20.0uncharacterized protein LOC7463114
SwissprotQ84W560.0RNJ_ARATH; Ribonuclease J
TrEMBLB9IF880.0B9IF88_POPTR; Uncharacterized protein
STRINGPOPTR_0015s10570.10.0(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]