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.04G194600.1.p
Common NameGLYMA_04G194600, LOC100783850
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: 889aa    MW: 97592.8 Da    PI: 9.0816
Description Trihelix family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Glyma.04G194600.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1trihelix62.78.4e-20796876186
             trihelix   1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqle 86 
                          +W+ +ev++Li +r e+ +r++  k +++lWee+s+k+ + g++rsp qCk+ w +l  +y+ ik+ + ++     +++py +++e
  Glyma.04G194600.1.p 796 KWKTEEVKKLIGMRGELSDRFQVVKGRMALWEEISQKLLADGISRSPGQCKSLWTSLVVKYEGIKNKNDSK-----KSWPYIEDME 876
                          7********************************************************************85.....56*******8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.60.15.101.8E-6779329IPR001279Metallo-beta-lactamase
SuperFamilySSF562812.14E-7280494IPR001279Metallo-beta-lactamase
SMARTSM008499.0E-2592289IPR001279Metallo-beta-lactamase
PfamPF007531.1E-1093237IPR001279Metallo-beta-lactamase
PfamPF075219.3E-7435466IPR011108Zn-dependent metallo-hydrolase, RNA specificity domain
Gene3DG3DSA:1.10.10.601.5E-4788853IPR009057Homeodomain-like
PROSITE profilePS500908.327789853IPR017877Myb-like domain
PfamPF138371.6E-16794878No hitNo description
CDDcd122031.15E-19795860No 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: 889 aa     Download sequence    Send to blast
MSALTSLSLS LRTLSLRPKP TTSLSASLSA IPGTGSSDGS KTKVPPRKRT RRIEGPRKSM  60
EDSVQRKMEQ FYEGSDGPPL RVLPIGGLGE IGMNCMLVGN HDRYILIDAG VMFPDYDELG  120
VQKIIPDTTF IRKWSHKIEA LVITHGHEDH IGALPWVIPA LDSNTPIFAS SFTLELMKKR  180
LKEHGIFVPS RLKVFRTRKK FVAGPFEIEP IRVTHSIPDC CGLVLRCSDG TILHTGDWKI  240
DETPLDGKVF DREALEELSK EGVTLMMSDS TNVLSPGRTI SESVVADALL RHISASKGRV  300
ITTQFASNLH RLGSVKAAAD LTGRKLVFVG MSLRTYLDAA WKDGKAPIDP STLVKAEDID  360
AYAPKDLLIV TTGSQAEPRA ALNLSSYGSS HAFKLTKEDV VLYSAKVIPG NESRVMKMLN  420
RISEIGSTIV MGKNEGLHTS GHAYRGELEE VLRIVKPQHF LPIHGELLFL KEHELLGKST  480
GIRHTAVIKN GEMLGVSHLR NRRVLSNGFI SLGKENLQLK YSDGDRAFGT SSDLFIDERL  540
RIALDGIIVI SMEIFRPKVL DGSAENTLKG KIRITTRCLW LDKGKLMDAL YKAARAALSS  600
CPVKSPLAHI ERIVSEVLRK TVRKYSGKRP EVIAIAIEKP AAILADEINT KLSGKSHVGL  660
GMSALSKAVD GHRKGNQSTA LQVKDDSIGN ASGAGGDLSD ENNTASGPEG YLSEEDNTAS  720
GAEGDLSESE DSDEFWKPFI TSLPVEKSIS ADNSYVSQKE QKSNLKKDDS EDIDEAKSEE  780
TSNSEPKLSK SVKRNKWKTE EVKKLIGMRG ELSDRFQVVK GRMALWEEIS QKLLADGISR  840
SPGQCKSLWT SLVVKYEGIK NKNDSKKSWP YIEDMERIMS DKEAPATK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5a0t_A2e-868063819560RIBONUCLEASE J
5a0t_B2e-868063819560RIBONUCLEASE J
5a0v_A2e-868063819560RIBONUCLEASE J
5a0v_B2e-868063819560RIBONUCLEASE J
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Gma.629700.0leaf
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.04G194600.1.p
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_003522430.10.0ribonuclease J isoform X1
SwissprotQ84W560.0RNJ_ARATH; Ribonuclease J
TrEMBLK7KL530.0K7KL53_SOYBN; Uncharacterized protein
STRINGGLYMA04G37020.20.0(Glycine max)
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]