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 Seita.1G185600.1.p
Common NameLOC101761263, SETIT_016284mg
Organism
Setaria italica
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Cenchrinae; Setaria
Family Trihelix
Protein Properties Length: 879aa    MW: 96360.6 Da    PI: 8.7813
Description Trihelix family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Seita.1G185600.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1trihelix66.84.3e-21786866186
            trihelix   1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqle 86 
                         +W+ +e++ Li++r em+e++++ k ++ lWee+s  ++ +g++r+p qCk+ w +l ++y++ k+ e++      +t+pyf++++
  Seita.1G185600.1.p 786 KWKPEEIKSLIQMRGEMNEKFQSVKGRMVLWEEISGSLMNQGISRTPAQCKSLWTSLVQKYEESKKDEES-----MKTWPYFSDID 866
                         7******************************************************************998.....579*****998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.60.15.104.4E-6690340IPR001279Metallo-beta-lactamase
SuperFamilySSF562814.36E-7291505IPR001279Metallo-beta-lactamase
SMARTSM008497.2E-24103300IPR001279Metallo-beta-lactamase
PfamPF127067.0E-11115250IPR001279Metallo-beta-lactamase
PfamPF075212.4E-7448477IPR011108Zn-dependent metallo-hydrolase, RNA specificity domain
PROSITE profilePS500907.782779843IPR017877Myb-like domain
Gene3DG3DSA:1.10.10.602.3E-5782845IPR009057Homeodomain-like
CDDcd122032.29E-21785850No hitNo description
PfamPF138375.4E-17785868No 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: 879 aa     Download sequence    Send to blast
MVALASLSSL CPCGVARRRA ASASASASAS TSTSVSISCC AVAIPSSGKG PQESRTPRKK  60
LRRTEGATKS LEDSVKRKLE QFYEGVDGPP LRVLPIGGLG EIGMNCMLVG NYDRYILIDA  120
GVMFPDYDEF GVQKIIPDTT FIKKWSHKIE AVIITHGHED HIGALPWVIP ALDSTTPIFA  180
SSFTMELIKK RLKEFGIFLS SRLKVLRIKK RFQAGPFEVE PIRVTHSVPD CCGLVLRCGD  240
GIIFHTGDWK IDESPVDGKI FDREALEELS KEGVTLMMSD STNVLSPGRS ISESVVAGSL  300
LRHISEAKGR VITTQFASNI HRIGSVKAAA DLTGRKMVFV GMSLRTYLEA AFKDGKAPLD  360
PSTLVKVEDM DAYAPKDLLV VTTGSQGEPR AALNLASYGG SHALKLSKED VLLYSAKVIP  420
GNETRVMKMM NRLTDLGPKI IMGKDSGLHT SGHAYRDELE EVLRIVKPQH FLPVHGELLF  480
LKEHELLGRS TGIRHTTVIK NGEMLGVSHL RNRRVLSSGF VSLGKEDFQL MYSDGDKAFG  540
TSTDLCIDER LRIASDGIIF VSMEIIRPQK EHASTQSGLK GKFKITTRCL WLDNGRLLDA  600
LYKAAHAALS SCPVNCPLSH MERMVAEILR KMVRKYSGKR PDVIAVATEN TTAGFSEHLE  660
AKSSGNFGPS SATSHLSRSP ARSLEGSYKT HPDNPDVEAE ETLPEAVSTT PDDATTSSNG  720
EAFFSSDLHQ PKTLEHFWES FKSPTAVKIA RIVNGGNKQN LGKIGILGKD PTQSAPAPVK  780
SSKKNKWKPE EIKSLIQMRG EMNEKFQSVK GRMVLWEEIS GSLMNQGISR TPAQCKSLWT  840
SLVQKYEESK KDEESMKTWP YFSDIDRILS CEGEMATK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5a0t_A3e-849164919560RIBONUCLEASE J
5a0t_B3e-849164919560RIBONUCLEASE J
5a0v_A3e-849164919560RIBONUCLEASE J
5a0v_B3e-849164919560RIBONUCLEASE J
Search in ModeBase
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
PlantRegMapSeita.1G185600.1.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_004952679.10.0uncharacterized protein LOC101761263 isoform X1
SwissprotQ84W560.0RNJ_ARATH; Ribonuclease J
TrEMBLK3YPU20.0K3YPU2_SETIT; Uncharacterized protein
STRINGSi016284m0.0(Setaria italica)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP49963542
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]