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 Medtr3g089020.1
Common NameMTR_3g089020
Organism
Medicago truncatula
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Trifolieae; Medicago
Family Trihelix
Protein Properties Length: 868aa    MW: 96355.1 Da    PI: 8.1121
Description Trihelix family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Medtr3g089020.1genomeMtView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1trihelix61.12.7e-19775855186
         trihelix   1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqle 86 
                      +W+ +ev++Li++r+++ +r++  k +++lWee+s+ + + g++rsp qCk+ w +l+ +y++ik+g+ +r     ++++y++++e
  Medtr3g089020.1 775 KWKTEEVKKLIDLRSDLRDRFKVVKGRMALWEEISQSLLADGISRSPGQCKSLWTSLALKYEEIKNGKDSR-----KNWQYLEDME 855
                      7********************************************************************96.....79*******8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.60.15.101.6E-6677327IPR001279Metallo-beta-lactamase
SuperFamilySSF562812.23E-7378492IPR001279Metallo-beta-lactamase
SMARTSM008497.7E-2590287IPR001279Metallo-beta-lactamase
PfamPF127061.5E-9102237IPR001279Metallo-beta-lactamase
PfamPF075214.8E-9429479IPR011108Zn-dependent metallo-hydrolase, RNA specificity domain
PROSITE profilePS500907.991768832IPR017877Myb-like domain
Gene3DG3DSA:1.10.10.604.6E-4771831IPR009057Homeodomain-like
PfamPF138371.6E-15774857No hitNo description
CDDcd122035.73E-17774839No 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: 868 aa     Download sequence    Send to blast
MATLTSLPPL PHSLLSLRSK PTRLSVSASA LSASGNDGST SRVPQKRRRR IEGPRKSMED  60
SVQRRMEQFY EGNDGPPLRV LPIGGLGEIG MNCMLVGNHD RYILIDAGIM FPDYDDLGVQ  120
KIIPDTTFIR KWSHKIEALV ITHGHEDHIG ALPWVIPALD SNTPIFASSF TMELIKKRLK  180
EHGIFLPSRL KIFRTKNKFV AGPFEIEPIR VTHSIPDCCG LVLRCSDGTI LHTGDWKIDE  240
TPLDGKVFDR EGLEELSKEG VTLMMSDSTN VLSPGRTTSE SVVADSLLRH ISASKGRVIT  300
TQFASNLHRI GSVKAAADLT GRKLVFVGMS LRTYLEAAWK DGKAPFDPST LVKAEDIDAY  360
APKDLLIVTT GSQAEPRAAL NLASFGSSHA FKLTKEDIVL YSAKVIPGNE SRVMEMMNRI  420
SEIGSTIVMG RNENLHTSGH AYRGELEEVL RIVKPQHFLP VHGEYLFLKE HESLGKSTGI  480
RHTAVIKNGE MLGVSHLRNR RVLSNGFISL GKENLQLKYS DGDKAFGTSG ELFLDERMRI  540
ALDGIIVVSM EIFRPKNLES LAGNTLKGKI RITTRCLWLD KGKLLDALYK AAHAALSSCP  600
VKSPLPHMER TVSEVLRKMV RKYSGKRPEV IAIAIENPGA VFADEINTKL SGKSQVGPGI  660
STFRRSVDEH RKENQSTALQ IRDDGIDIEG LLVEIETITT AAEGDLSDSG ESDEFWKPFI  720
ASSVEKSIKA NNGYVSRKEH KSNTKQDDSE DIDEAKSEEM SDSEPESSKS EKKNKWKTEE  780
VKKLIDLRSD LRDRFKVVKG RMALWEEISQ SLLADGISRS PGQCKSLWTS LALKYEEIKN  840
GKDSRKNWQY LEDMERILSS DETPATN*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5a0t_A2e-887863619560RIBONUCLEASE J
5a0t_B2e-887863619560RIBONUCLEASE J
5a0v_A2e-887863619560RIBONUCLEASE J
5a0v_B2e-887863619560RIBONUCLEASE J
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
14550KRRRRI
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Mtr.79350.0leaf
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
PlantRegMapMedtr3g089020.1
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 -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1267820.0AC126782.23 Medicago truncatula clone mth2-14p11, complete sequence.
GenBankCU0120420.0CU012042.6 M.truncatula DNA sequence from clone MTH2-25G4 on chromosome 3, complete sequence.
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
STRINGAES723410.0(Medicago truncatula)
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. Young ND, et al.
    The Medicago genome provides insight into the evolution of rhizobial symbioses.
    Nature, 2011. 480(7378): p. 520-4
    [PMID:22089132]
  3. 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]