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 Glyma.17G128500.12.p
Common NameGLYMA_17G128500
Organism
Glycine max
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Glycine; Soja
Family Trihelix
Protein Properties Length: 714aa    MW: 79107.6 Da    PI: 8.1243
Description Trihelix family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Glyma.17G128500.12.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1trihelix55.91.1e-17636704169
              trihelix   1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegek 69 
                           +W+++ev++Li++r e+++r++  k +++lWee+s+++ + g++rsp qCk+ w +l ++y++  ++++
  Glyma.17G128500.12.p 636 KWKHEEVKKLIDMRGELNDRFQVVKGRMALWEEISQNLLANGISRSPGQCKSLWTSLLQKYEEASTSDG 704
                           7************************************************************99887765 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.60.15.103.1E-3717188IPR001279Metallo-beta-lactamase
SuperFamilySSF562811.01E-4422353IPR001279Metallo-beta-lactamase
PfamPF075216.6E-6296325IPR011108Zn-dependent metallo-hydrolase, RNA specificity domain
PROSITE profilePS500908.618629693IPR017877Myb-like domain
Gene3DG3DSA:1.10.10.603.5E-5630695IPR009057Homeodomain-like
PfamPF138371.7E-13634703No hitNo description
CDDcd122039.55E-21635699No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 714 aa     Download sequence    Send to blast
MSYVYSLFNF DLVHQVIPAL DSHTPIFASS FTMELIRKRL KDHGIFVPSR LKVFRTRKKF  60
MAGPFEVEPI TVTHSIPDCC GLVLRCSDGT ILHTGDWKID ETPLDGRVFD REALEELSKE  120
GVTLMMSDST NVLSPGRTTS ESVVADALLR NISAAKGRVI TTQFASNIHR LGSVKAAADL  180
TGRKLVFVGM SLRTYLDAAW KDGKSPIDPS TLVKAEDIDA YAPKDLLIVT TGSQAEPRAA  240
LNLASFGSSH SFKLTKEDTV LYSAKVIPGN ESRVMEMLNR ISEIGSTIVM GKNECLHTSG  300
HGYRGELEEV LRIVKPQHFL PIHGELLFLK EHELLGKSTG IRHTTVIKNG EMLGVSHLRN  360
RRVLSNGFIS LGKENLQLMY SDGEKAFGTS SDLFIDERLK IALDGIIVVN MEIFRPQNLD  420
SPVENTLKGK IRITTRCLWL DKGKLLDALH KAAHAALASC PVSCPLAHME KIVSEMLRKM  480
VRKYSGKRPE VIAIAIENPA AVLANEINTK LSGKLNVDGM SALRKVVDGH EKENQRTEMQ  540
IRDRIDVGGL LPTKDNAISS GAEDGLSDAE DPNDYFKPFV ESSPVEKSIK TNNGYVPRKE  600
KSSPLKDDCS EDTEECNSVN TSDSEPKSSK SAKRNKWKHE EVKKLIDMRG ELNDRFQVVK  660
GRMALWEEIS QNLLANGISR SPGQCKSLWT SLLQKYEEAS TSDGVERRTK SIF*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5a0t_A9e-6225497104560RIBONUCLEASE J
5a0t_B9e-6225497104560RIBONUCLEASE J
5a0v_A9e-6225497104560RIBONUCLEASE J
5a0v_B9e-6225497104560RIBONUCLEASE J
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Gma.271070.0cotyledon| hypocotyl| leaf| root
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
PlantRegMapGlyma.17G128500.12.p
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_014625455.10.0ribonuclease J isoform X3
SwissprotQ84W560.0RNJ_ARATH; Ribonuclease J
TrEMBLA0A0R0FN020.0A0A0R0FN02_SOYBN; Uncharacterized protein
STRINGGLYMA17G13780.30.0(Glycine max)
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]