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 678447270
Organism
Utricularia gibba
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Lamiales; Lentibulariaceae; Utricularia
Family Trihelix
Protein Properties Length: 876aa    MW: 97494.6 Da    PI: 9.1597
Description Trihelix family protein
Gene Model
Gene Model ID Type Source Coding Sequence
678447270genomeUGSPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1trihelix63.74e-20787866185
   trihelix   1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdql 85 
                +W+ +ev++Lie+r e+++r++  k +++lWee+s+ + + g++r+p qCk+ w +l ++y+ ik+ e+++     + +pyf+++
  678447270 787 KWKPKEVKKLIEMRHELNRRFQVVKGRMALWEEISSSLLQNGISRTPGQCKSLWASLVQKYEHIKDDEEGQ-----KGWPYFEDV 866
                7********************************************************************84.....67****987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.60.15.104.0E-6878328IPR001279Metallo-beta-lactamase
SuperFamilySSF562815.77E-7279493IPR001279Metallo-beta-lactamase
SMARTSM008495.2E-2691288IPR001279Metallo-beta-lactamase
PfamPF127061.4E-10103238IPR001279Metallo-beta-lactamase
Gene3DG3DSA:3.60.15.107.4E-4388465IPR001279Metallo-beta-lactamase
PfamPF075212.1E-7433465IPR011108Zn-dependent metallo-hydrolase, RNA specificity domain
PROSITE profilePS500908.153780844IPR017877Myb-like domain
Gene3DG3DSA:1.10.10.604.8E-5783846IPR009057Homeodomain-like
SMARTSM007170.0084784846IPR001005SANT/Myb domain
PfamPF138371.9E-16785868No hitNo description
CDDcd122039.37E-19786851No 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: 876 aa     Download sequence    Send to blast
MMAASNALSV FTYKLHFFQT KPRKRFATCC VSLPEVKGQR ESKVPRGRYR RLEGAGKSME  60
DSVKRKMEQF YEGSNGPPLR VLPIGGLGEI GMNCMLVGNY DRYILIDAGV MFPDCDELGV  120
QKIIPDTTFI KKWSHKIEAV VITHGHEDHI GALPWVIPAL DAHTPIFASS FTMELIKKRL  180
KEFGIFVPSR LKVFKVGKRF AAGPFEVEPI RVTHSIPDCS GLVFRCSDGT ILHTGDWKID  240
ETPLDGKVFD RVALEELSKE GVTLMMSDST NILSSGRTLS EKVVAESLLR NIAAAKGRII  300
TTQFASNVHR LGSVKAAADF TGRKLVFVGM SLRTYLDAAW KDGKAPIDPS SLVKVEDIDA  360
YAPKDLLIVT TGSQAEPRAA LNLASYGGSH SLKLNKEDII LYSAKVIPGN ETRVMKMMNR  420
IAEIGSKIVM GKNEMLHTSG HAYREELDEV LKIVKPQHFL PIHGELLFLK EHELLGKSTG  480
IRHTAVIKNG EMLGVSHLRN RRVLSNGFVS LGKENLQLMY SDGDKAFGTS AELCIDERIR  540
IAYDGIIVVS MEIMRPQDPS EKFLKGKIRI TTRCLWLDKG KLLDALHKTA HAALSSCPVN  600
CPLNHMERTV SEVLRKMVRK YSSKRPEVVA IATENPSAVA AEEINGKLSG KLPVSSEMMS  660
LRKAIEGHEK RRKIISKVDA DGHRPESSEL ELQGRDLNMR VQDDETLPSS SNMEKAPSIV  720
QTNELMESLA PSMKAKLEGV SGLIPEDEHE KEAAAAAAAT GKVERENLEV DSGLNQASQK  780
NTEKRNKWKP KEVKKLIEMR HELNRRFQVV KGRMALWEEI SSSLLQNGIS RTPGQCKSLW  840
ASLVQKYEHI KDDEEGQKGW PYFEDVKSIL ENSAAQ
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5a0t_A2e-857963419560RIBONUCLEASE J
5a0t_B2e-857963419560RIBONUCLEASE J
5a0v_A2e-857963419560RIBONUCLEASE J
5a0v_B2e-857963419560RIBONUCLEASE 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
PlantRegMap678447270
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
GenBankLN6818144e-32LN681814.1 Cucumis melo genomic scaffold, anchoredscaffold00089.
GenBankLN7132564e-32LN713256.1 Cucumis melo genomic chromosome, chr_2.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_011073024.10.0uncharacterized protein LOC105158090 isoform X1
SwissprotQ84W560.0RNJ_ARATH; Ribonuclease J
TrEMBLA0A4D8YXA30.0A0A4D8YXA3_SALSN; Ribonuclease J
STRINGMigut.I00512.1.p0.0(Erythranthe guttata)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA58742331
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]