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 Lj0g3v0261399.2
Organism
Lotus japonicus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Loteae; Lotus
Family Trihelix
Protein Properties Length: 453aa    MW: 50787.8 Da    PI: 8.9527
Description Trihelix family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Lj0g3v0261399.2genomeKazusaView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1trihelix56.38.2e-18362441186
         trihelix   1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqle 86 
                      +W+ +ev+ Li +r ++ +r++  k +++lWee+s+++ + g++rsp qCk+ w +l  +y++ik++++++      +++y +++e
  Lj0g3v0261399.2 362 KWKVEEVKRLISMRGKLRDRFQVVKGRMALWEEISQNLLADGISRSPGQCKSLWTSLVLKYEEIKNTDGNK------SWQYREDME 441
                      7*******************************************************************984......599999998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF562811.62E-5579IPR001279Metallo-beta-lactamase
PfamPF075214.0E-72051IPR011108Zn-dependent metallo-hydrolase, RNA specificity domain
Gene3DG3DSA:1.10.10.603.2E-4358419IPR009057Homeodomain-like
PROSITE profilePS500907.631359419IPR017877Myb-like domain
CDDcd122034.63E-17361426No hitNo description
PfamPF138371.0E-14361442No 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: 453 aa     Download sequence    Send to blast
MEMLNRISEI GSTIVMGKNE GLHTSGHAYR GELEEVLRIV KPQHFLPIHG ELLFLKEHEL  60
LGKSTGIRHT AVIKNGEMLG VSHLRNRRVL SNGFISLGKE NLQLKYSDGD KAFGTSSELF  120
LDERLRIALD GIIVISMEIF RPKNLDNFAE NTLKGKIRIT TRCLWLDKGK LIDAIYKAAR  180
AALSSCPVNS PLSHLERTVA EVLRKMVRKY SGKRPEVIAI AIENPAAVLA DEINTKLSGK  240
SHVAPGTSTL RKAIAGHGKE NQYTTLKTRD DGIDVEGLVP EEETTTSGAE GDLSNSEDSD  300
DFLKPFIASF KEKSVNANNG YVSRNEHKFN IKKDDSEDTN EAKSEETSNS EPNPPKLVKK  360
NKWKVEEVKR LISMRGKLRD RFQVVKGRMA LWEEISQNLL ADGISRSPGQ CKSLWTSLVL  420
KYEEIKNTDG NKSWQYREDM ERAMSNEETP ATK
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Lja.24971e-129flower| pod| 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
PlantRegMapLj0g3v0261399.2
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_027190570.10.0ribonuclease J-like isoform X2
SwissprotQ84W560.0RNJ_ARATH; Ribonuclease J
TrEMBLA0A3Q7YFI90.0A0A3Q7YFI9_CICAR; ribonuclease J-like isoform X2
STRINGXP_004500652.10.0(Cicer arietinum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G63420.11e-176Trihelix 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]