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 evm.model.supercontig_13.140
Organism
Carica papaya
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Caricaceae; Carica
Family Trihelix
Protein Properties Length: 820aa    MW: 90986.3 Da    PI: 7.6778
Description Trihelix family protein
Gene Model
Gene Model ID Type Source Coding Sequence
evm.model.supercontig_13.140genomeASGPBView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1trihelix64.42.5e-20727806185
                      trihelix   1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpy 81 
                                   +W+ +ev++Li++r e++ r++  k +++lWee+s+ +++ g++rsp qCk+ w +l ++y++ k+ +k r     +++py
  evm.model.supercontig_13.140 727 KWKPEEVKQLIRMRGELHARFQVVKGRMALWEEISASLMADGINRSPGQCKSLWASLVRKYEESKNVKKIR-----KSWPY 802
                                   7******************************************************************9986.....56*** PP

                      trihelix  82 fdql 85 
                                   f+++
  evm.model.supercontig_13.140 803 FEDV 806
                                   *987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.60.15.101.7E-6820270IPR001279Metallo-beta-lactamase
SuperFamilySSF562812.42E-7021435IPR001279Metallo-beta-lactamase
SMARTSM008497.1E-2533230IPR001279Metallo-beta-lactamase
PfamPF127062.0E-1145180IPR001279Metallo-beta-lactamase
PfamPF075211.7E-6373407IPR011108Zn-dependent metallo-hydrolase, RNA specificity domain
PROSITE profilePS500907.747720784IPR017877Myb-like domain
Gene3DG3DSA:1.10.10.605.1E-5721786IPR009057Homeodomain-like
PfamPF138374.9E-17726807No hitNo description
CDDcd122031.96E-22726791No 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: 820 aa     Download sequence    Send to blast
MEDSVKRKLE QFYEGSSGPP LRVLPIGGLG EIGMNCMLVG NYDRYILIDA GVMFPDYDEL  60
GVQKIIPDTT FIKRWSHKIE AVIITHGHED HIGALPWVIP ALDSHTPIYA SSFTMELIKK  120
RLKENGIFVP SRLNIFKTRR KFMAGPFEVE PITVTHSIPD CCGLVLRCAD GTILHTGDWK  180
IDESPLDGKV FDRQALEELS KEGVTLMMSD STNVMSPGRT ISETVVADSL LRRISAAKGR  240
VITTQFASNI HRLGSVKAAA DLTGRKLVFV GMSLRTYLDA AWKDGKAPID PSTLVKVEDI  300
DAYAPKDLLI VTTGSQAEPR AALNLASYGS SHSFKLTKED IILYSAKVIP GNESRVMKML  360
NRISDIGSTI VMGRNEMLHT SGHGYRGELE EVLKLVKPQH FLPIHGELLF LKEHELLGKS  420
TGIRHTTVIK NGEMLGVSHL RNRRVLSNGF ISLGKESLQV VMYCDGDKAF GTSTELCIEE  480
RLRIASDGII VVSMEILRPQ NDDLMENRLR GKIRITTRCL WLDKGKLLDA IYRAAHAALS  540
SCPVNCPLAH MERTVSEVLR KMVRKYSGKR PEVITVATEN PAAVLSNDLS ERLSGDSHVG  600
FGVSALRKVV EKHPKSSLSN KMQAEGSHIR EKSEHNLEVD DTEDGTLLPE EDTPVSSLDS  660
TERLASKTED SDDFWKTFVK SPSPVESEAD SRGHITEIKE DGSESSGDDS KTENSLPKSS  720
KRVKGNKWKP EEVKQLIRMR GELHARFQVV KGRMALWEEI SASLMADGIN RSPGQCKSLW  780
ASLVRKYEES KNVKKIRKSW PYFEDVSNIL SDSAATATK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5a0t_A2e-852157919560RIBONUCLEASE J
5a0t_B2e-852157919560RIBONUCLEASE J
5a0v_A2e-852157919560RIBONUCLEASE J
5a0v_B2e-852157919560RIBONUCLEASE 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
PlantRegMapevm.model.supercontig_13.140
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_021905496.10.0uncharacterized protein LOC110820357
SwissprotQ84W560.0RNJ_ARATH; Ribonuclease J
TrEMBLA0A061FYV10.0A0A061FYV1_THECC; RNA-metabolising metallo-beta-lactamase family protein
STRINGevm.model.supercontig_13.1400.0(Carica papaya)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM95392634
Representative plantOGRP30821521
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]