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 Lj0g3v0261399.1
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: 864aa    MW: 95669.4 Da    PI: 8.7268
Description Trihelix family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Lj0g3v0261399.1genomeKazusaView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1trihelix552.1e-17773852186
         trihelix   1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqle 86 
                      +W+ +ev+ Li +r ++ +r++  k +++lWee+s+++ + g++rsp qCk+ w +l  +y++ik++++++      +++y +++e
  Lj0g3v0261399.1 773 KWKVEEVKRLISMRGKLRDRFQVVKGRMALWEEISQNLLADGISRSPGQCKSLWTSLVLKYEEIKNTDGNK------SWQYREDME 852
                      7*******************************************************************984......599999998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.60.15.106.0E-6775325IPR001279Metallo-beta-lactamase
SuperFamilySSF562812.19E-7276490IPR001279Metallo-beta-lactamase
SMARTSM008491.5E-2388285IPR001279Metallo-beta-lactamase
PfamPF127067.9E-1099235IPR001279Metallo-beta-lactamase
PfamPF075219.0E-7431462IPR011108Zn-dependent metallo-hydrolase, RNA specificity domain
Gene3DG3DSA:1.10.10.607.6E-4769830IPR009057Homeodomain-like
PROSITE profilePS500907.631770830IPR017877Myb-like domain
PfamPF138372.6E-14772853No hitNo description
CDDcd122037.66E-18772837No 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: 864 aa     Download sequence    Send to blast
MAAFTSLSLS PHTLYLRPKP PPRSVSASVS VSALPGTDGK APRKRTRRVE GPRKSMEDSV  60
QRKMEQFYEG ADGPPLRVLP IGGLGEIGMN CMLVGNHDRY ILIDAGVMFP DVDELGVQKV  120
IPDTTFIRKW SHKIEALVIT HGHEDHIGAL PWVIPALDSN TPIFASSFTM ELIKKRLKEH  180
GIFLSSRLRV FSTRTKFVAG PFEVEPIRVT HSIPDCCGLV LRCSDGTILH TGDWKIDETP  240
LDGNVFDREA LEELSKEGVT LMMSDSTNIL SPGRTTSESS VADALLRHIS ASKGRVITTQ  300
FASNLHRIGS VKAAADLTGR KLVFVGMSLR TYLEAAWKDG KAPFDPSTLV KVEDIDAYAP  360
KDLLIVTTGS QAEPRAALNL ASYGSSHAFK LSKEDVVLYS AKVIPGNESR VMEMLNRISE  420
IGSTIVMGKN EGLHTSGHAY RGELEEVLRI VKPQHFLPIH GELLFLKEHE LLGKSTGIRH  480
TAVIKNGEML GVSHLRNRRV LSNGFISLGK ENLQLKYSDG DKAFGTSSEL FLDERLRIAL  540
DGIIVISMEI FRPKNLDNFA ENTLKGKIRI TTRCLWLDKG KLIDAIYKAA RAALSSCPVN  600
SPLSHLERTV AEVLRKMVRK YSGKRPEVIA IAIENPAAVL ADEINTKLSG KSHVAPGTST  660
LRKAIAGHGK ENQYTTLKTR DDGIDVEGLV PEEETTTSGA EGDLSNSEDS DDFLKPFIAS  720
FKEKSVNANN GYVSRNEHKF NIKKDDSEDT NEAKSEETSN SEPNPPKLVK KNKWKVEEVK  780
RLISMRGKLR DRFQVVKGRM ALWEEISQNL LADGISRSPG QCKSLWTSLV LKYEEIKNTD  840
GNKSWQYRED MERAMSNEET PATK
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5a0t_A1e-847654619478RIBONUCLEASE J
5a0t_B1e-847654619478RIBONUCLEASE J
5a0v_A1e-847654619478RIBONUCLEASE J
5a0v_B1e-847654619478RIBONUCLEASE J
Search in ModeBase
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
PlantRegMapLj0g3v0261399.1
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_003602090.20.0uncharacterized protein LOC11427815 isoform X1
RefseqXP_024635631.10.0uncharacterized protein LOC11427815 isoform X1
SwissprotQ84W560.0RNJ_ARATH; Ribonuclease J
TrEMBLG7J5I70.0G7J5I7_MEDTR; Putative beta-lactamase transcription factor MYB family
STRINGXP_004500652.10.0(Cicer arietinum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF50993450
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]