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.17G128500.3.p
Common NameGLYMA_17G128500, LOC100814619
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: 784aa    MW: 87434.5 Da    PI: 8.2188
Description Trihelix family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Glyma.17G128500.3.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1trihelix67.82.2e-21690771186
             trihelix   1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqle 86 
                          +W+++ev++Li++r e+++r++  k +++lWee+s+++ + g++rsp qCk+ w +l ++y+++ ++ekk+    ++++pyf+++e
  Glyma.17G128500.3.p 690 KWKHEEVKKLIDMRGELNDRFQVVKGRMALWEEISQNLLANGISRSPGQCKSLWTSLLQKYEQEVKNEKKN----KKKWPYFEDME 771
                          7********************************************************************95....568*******8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM008499.5E-174202IPR001279Metallo-beta-lactamase
Gene3DG3DSA:3.60.15.101.1E-5328242IPR001279Metallo-beta-lactamase
SuperFamilySSF562811.82E-5835407IPR001279Metallo-beta-lactamase
PfamPF127065.1E-1048152IPR001279Metallo-beta-lactamase
PfamPF075217.3E-6350379IPR011108Zn-dependent metallo-hydrolase, RNA specificity domain
PROSITE profilePS500908.618683747IPR017877Myb-like domain
Gene3DG3DSA:1.10.10.603.9E-5684749IPR009057Homeodomain-like
PfamPF138376.4E-19688773No hitNo description
CDDcd122034.32E-20689751No 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: 784 aa     Download sequence    Send to blast
MIAISSLMLV SCFQSELTLI YAWIAYFSYD ELGVQKIIPD TTFIRKWKHK IEAVIITHGH  60
EDHIGALPWV IPALDSHTPI FASSFTMELI RKRLKDHGIF VPSRLKVFRT RKKFMAGPFE  120
VEPITVTHSI PDCCGLVLRC SDGTILHTGD WKIDETPLDG RVFDREALEE LSKEGVTLMM  180
SDSTNVLSPG RTTSESVVAD ALLRNISAAK GRVITTQFAS NIHRLGSVKA AADLTGRKLV  240
FVGMSLRTYL DAAWKDGKSP IDPSTLVKAE DIDAYAPKDL LIVTTGSQAE PRAALNLASF  300
GSSHSFKLTK EDTVLYSAKV IPGNESRVME MLNRISEIGS TIVMGKNECL HTSGHGYRGE  360
LEEVLRIVKP QHFLPIHGEL LFLKEHELLG KSTGIRHTTV IKNGEMLGVS HLRNRRVLSN  420
GFISLGKENL QLMYSDGEKA FGTSSDLFID ERLKIALDGI IVVNMEIFRP QNLDSPVENT  480
LKGKIRITTR CLWLDKGKLL DALHKAAHAA LASCPVSCPL AHMEKIVSEM LRKMVRKYSG  540
KRPEVIAIAI ENPAAVLANE INTKLSGKLN VDGMSALRKV VDGHEKENQR TEMQIRDRID  600
VGGLLPTKDN AISSGAEDGL SDAEDPNDYF KPFVESSPVE KSIKTNNGYV PRKEKSSPLK  660
DDCSEDTEEC NSVNTSDSEP KSSKSAKRNK WKHEEVKKLI DMRGELNDRF QVVKGRMALW  720
EEISQNLLAN GISRSPGQCK SLWTSLLQKY EQEVKNEKKN KKKWPYFEDM ERILADNKTL  780
ETK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5a0t_A1e-75855134560RIBONUCLEASE J
5a0t_B1e-75855134560RIBONUCLEASE J
5a0v_A1e-75855134560RIBONUCLEASE J
5a0v_B1e-75855134560RIBONUCLEASE 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.17G128500.3.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_014625456.10.0ribonuclease J isoform X4
SwissprotQ84W560.0RNJ_ARATH; Ribonuclease J
TrEMBLA0A0R0FLZ50.0A0A0R0FLZ5_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]