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.17G128500.1.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: 871aa    MW: 97033.5 Da    PI: 8.3034
Description Trihelix family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Glyma.17G128500.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1trihelix67.62.5e-21777858186
             trihelix   1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqle 86 
                          +W+++ev++Li++r e+++r++  k +++lWee+s+++ + g++rsp qCk+ w +l ++y+++ ++ekk+    ++++pyf+++e
  Glyma.17G128500.1.p 777 KWKHEEVKKLIDMRGELNDRFQVVKGRMALWEEISQNLLANGISRSPGQCKSLWTSLLQKYEQEVKNEKKN----KKKWPYFEDME 858
                          7********************************************************************95....568*******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-6879329IPR001279Metallo-beta-lactamase
SuperFamilySSF562816.7E-7280494IPR001279Metallo-beta-lactamase
SMARTSM008494.5E-2592289IPR001279Metallo-beta-lactamase
PfamPF127068.0E-11104239IPR001279Metallo-beta-lactamase
PfamPF075218.3E-6437466IPR011108Zn-dependent metallo-hydrolase, RNA specificity domain
PROSITE profilePS500908.618770834IPR017877Myb-like domain
Gene3DG3DSA:1.10.10.604.5E-5771836IPR009057Homeodomain-like
PfamPF138377.4E-19775860No hitNo description
CDDcd122033.92E-20776838No 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: 871 aa     Download sequence    Send to blast
MATCTSLSLC PHTFCCRHRP HPTRRSLASC SLSPSSLPDT DGPKVLRKRS RRIEGPRKSM  60
EDSVQCKMEE FYEGQDGPPL RVLPIGGLGE IGMNCMLVGN YDRYILIDAG IMFPDYDELG  120
VQKIIPDTTF IRKWKHKIEA VIITHGHEDH IGALPWVIPA LDSHTPIFAS SFTMELIRKR  180
LKDHGIFVPS RLKVFRTRKK FMAGPFEVEP ITVTHSIPDC CGLVLRCSDG TILHTGDWKI  240
DETPLDGRVF DREALEELSK EGVTLMMSDS TNVLSPGRTT SESVVADALL RNISAAKGRV  300
ITTQFASNIH RLGSVKAAAD LTGRKLVFVG MSLRTYLDAA WKDGKSPIDP STLVKAEDID  360
AYAPKDLLIV TTGSQAEPRA ALNLASFGSS HSFKLTKEDT VLYSAKVIPG NESRVMEMLN  420
RISEIGSTIV MGKNECLHTS GHGYRGELEE VLRIVKPQHF LPIHGELLFL KEHELLGKST  480
GIRHTTVIKN GEMLGVSHLR NRRVLSNGFI SLGKENLQLM YSDGEKAFGT SSDLFIDERL  540
KIALDGIIVV NMEIFRPQNL DSPVENTLKG KIRITTRCLW LDKGKLLDAL HKAAHAALAS  600
CPVSCPLAHM EKIVSEMLRK MVRKYSGKRP EVIAIAIENP AAVLANEINT KLSGKLNVDG  660
MSALRKVVDG HEKENQRTEM QIRDRIDVGG LLPTKDNAIS SGAEDGLSDA EDPNDYFKPF  720
VESSPVEKSI KTNNGYVPRK EKSSPLKDDC SEDTEECNSV NTSDSEPKSS KSAKRNKWKH  780
EEVKKLIDMR GELNDRFQVV KGRMALWEEI SQNLLANGIS RSPGQCKSLW TSLLQKYEQE  840
VKNEKKNKKK WPYFEDMERI LADNKTLETK *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5a0t_A3e-878063819560RIBONUCLEASE J
5a0t_B3e-878063819560RIBONUCLEASE J
5a0v_A3e-878063819560RIBONUCLEASE J
5a0v_B3e-878063819560RIBONUCLEASE 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.17G128500.1.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_006600800.10.0ribonuclease J isoform X1
SwissprotQ84W560.0RNJ_ARATH; Ribonuclease J
TrEMBLK7MLE60.0K7MLE6_SOYBN; Uncharacterized protein
STRINGGLYMA17G13780.30.0(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]