Detailed view for LmjF.04.1190

Basic information

TDR Targets ID: 24443
Leishmania major, tRNA nucleotidyltransferase, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 7.5676 | Length (AA): 523 | MW (Da): 58330 | Paralog Number: 0

Signal peptide: N | GPI Anchor: N | Predicted trans-membrane segments: 0

Druggability Group : DG1

Targets have been classified into druggability groups (DG) according to their druggability score in network driven prioritizations. DGs range from 1 to 5; the higher the group number, the higher the chance of the target to be druggable

Pfam domains

PF01743   Poly A polymerase head domain
PF12627   Probable RNA and SrmB- binding site of polymerase A

Gene Ontology

Mouse over links to read term descriptions.
GO:0016779   nucleotidyltransferase activity  
GO:0003723   RNA binding  
GO:0006396   RNA processing  

Metabolic Pathways

This gene is not mapped to any metabolic pathway in KEGG.

Structural information

Modbase 3D models:

There are 3 models calculated for this protein. More info on these models, including the models themselves is available at: Modbase

Target Beg Target End Template Template Beg Template End Identity Evalue Model Score MPQS zDope
21 519 1miw (A) 7 395 26.00 0 1 0.95 0.34
12 296 4wby (A) 0 245 28.00 0 1 0.626633 0.52
40 257 1miw (A) 26 215 38.00 0.00000000067 0.99 0.621426 0.67

Help me make sense of these data.

Target Beg: first modeled residue
Target End: last modeled residue
Template: template structure used for modelling (PDB accession and chain)
Template Beg: first template residue in target-template alignment
Template End: last template residue in target-template alignment
Identity: sequence identity
Evalue: E value for target-template hit
Model Score: GA341 score (>0.7 for reliable model)
MPQS: ModPipe Quality Score (>1.1 for reliable model)
zDope: zDope Score (negative for reliable model)

A more detailed description of these scores is available at the Modbase Model Evaluation Help Pages, and in the papers referenced therein.

PDB Structures:

No structure availble in the PDB for this protein

Expression

Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile metacyclic. Fernandes MC
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile amastigotes. Fernandes MC
Show/Hide expression data references
  • Fernandes MC Dual Transcriptome Profiling of Leishmania-Infected Human Macrophages Reveals Distinct Reprogramming Signatures.

Orthologs

Ortholog group members (OG5_126936)

Species Accession Gene Product
Arabidopsis thaliana AT1G28090   polynucleotide adenylyltransferase family protein
Arabidopsis thaliana AT5G23690   polynucleotide adenylyltransferase family protein
Arabidopsis thaliana AT3G48830   polynucleotide adenylyltransferase domain and RNA recognition motif-containing protein
Arabidopsis thaliana AT2G17580   polynucleotide adenylyltransferase family protein
Arabidopsis thaliana AT1G22660   polynucleotide adenylyltransferase-like protein
Babesia bovis BBOV_I004650   tRNA nucleotidyltransferase/poly(A) polymerase family domain containing protein
Brugia malayi Bm1_53360   polyA polymerase family protein
Candida albicans CaO19.4705   similar to S. cerevisiae CCA1 (YER168C) tRNA CCA-pyrophosphorylase
Candida albicans CaO19.12176   similar to S. cerevisiae CCA1 (YER168C) tRNA CCA-pyrophosphorylase
Caenorhabditis elegans CELE_F55B12.4   Protein HPO-31
Cryptosporidium hominis Chro.30241   tRNA adenylyltransferase -related
Cryptosporidium parvum cgd3_2040   Cca1p, tRNA adenylyltransferase
Chlamydia trachomatis CT_704   poly A polymerase
Chlamydia trachomatis CT_410   poly A polymerase
Dictyostelium discoideum DDB_G0293504   hypothetical protein
Drosophila melanogaster Dmel_CG2100   CG2100 gene product from transcript CG2100-RB
Escherichia coli b0143   poly(A) polymerase
Echinococcus granulosus EgrG_001084900   CCA tRNA nucleotidyltransferase 1
Entamoeba histolytica EHI_054790   tRNA nucleotidyltransferase, putative
Entamoeba histolytica EHI_167070   tRNA nucleotidyltransferase, putative
Echinococcus multilocularis EmuJ_001084900   CCA tRNA nucleotidyltransferase 1
Giardia lamblia GL50803_16064   tRNA-nucleotidyltransferase, putative
Homo sapiens ENSG00000072756   tRNA nucleotidyl transferase, CCA-adding, 1
Leishmania braziliensis LbrM.04.1210   tRNA nucleotidyltransferase, putative
Leishmania donovani LdBPK_041210.1   tRNA nucleotidyltransferase, putative
Leishmania infantum LinJ.04.1210   tRNA nucleotidyltransferase, putative
Leishmania major LmjF.04.1190   tRNA nucleotidyltransferase, putative
Leishmania mexicana LmxM.04.1190   tRNA nucleotidyltransferase, putative
Loa Loa (eye worm) LOAG_04995   hypothetical protein
Mus musculus ENSMUSG00000013736   tRNA nucleotidyl transferase, CCA-adding, 1
Neospora caninum NCLIV_058470   hypothetical protein
Oryza sativa 4351629   Os12g0171200
Oryza sativa 4335699   Os04g0395900
Oryza sativa 4331511   Os03g0131400
Plasmodium berghei PBANKA_0927800   tRNA nucleotidyltransferase, putative
Plasmodium falciparum PF3D7_1120500   tRNA nucleotidyltransferase, putative
Plasmodium knowlesi PKNH_0918200   tRNA nucleotidyltransferase, putative
Plasmodium vivax PVX_091655   tRNA nucleotidyltransferase, putative
Plasmodium yoelii PY00891   tRNA nucleotidyltransferase, mitochondrial precursor
Saccharomyces cerevisiae YER168C   Cca1p
Schistosoma japonicum Sjp_0150030   Poly(A) polymerase, putative
Schistosoma japonicum Sjp_0105010   Poly(A) polymerase, putative
Schistosoma mansoni Smp_178680   poly(A) polymerase
Schmidtea mediterranea mk4.001307.00   CCA tRNA nucleotidyltransferase 1, mitochondrial
Trypanosoma brucei gambiense Tbg972.9.4870   tRNA nucleotidyltransferase, putative
Trypanosoma brucei Tb427tmp.211.0590   tRNA nucleotidyltransferase, putative
Trypanosoma brucei Tb927.9.8780   tRNA nucleotidyltransferase, putative
Trypanosoma congolense TcIL3000_9_3090   tRNA nucleotidyltransferase, putative
Trypanosoma cruzi TcCLB.508349.20   tRNA nucleotidyltransferase, putative
Trypanosoma cruzi TcCLB.506649.100   tRNA nucleotidyltransferase, putative
Toxoplasma gondii TGME49_315810   tRNA nucleotidyltransferase/poly(A) polymerase family protein
Treponema pallidum TP0270   polynucleotide adenylyltransferase (pcnA)
Treponema pallidum TP0596   polynucleotide adenylyltransferase (pcnB)
Theileria parva TP03_0507   tRNA nucleotidyltransferase, putative
Trichomonas vaginalis TVAG_107950   poly(A) polymerase, putative
Trichomonas vaginalis TVAG_007180   poly(A) polymerase, putative
Trichomonas vaginalis TVAG_218280   poly(A) polymerase, putative
Trichomonas vaginalis TVAG_187910   tRNA-nucleotidyltransferase, putative
Trichomonas vaginalis TVAG_501270   poly(A) polymerase, putative
Trichomonas vaginalis TVAG_086020   poly(A) polymerase, putative
Wolbachia endosymbiont of Brugia malayi Wbm0160   tRNA nucleotidyltransferase/poly(A) polymerase

Essentiality

LmjF.04.1190 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb09.211.0590 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb09.211.0590 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb09.211.0590 Trypanosoma brucei significant gain of fitness in procyclic forms alsford
Tb09.211.0590 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
b0143 Escherichia coli non-essential goodall
CELE_F55B12.4 Caenorhabditis elegans larval arrest wormbase
CELE_F55B12.4 Caenorhabditis elegans larval lethal wormbase
YER168C Saccharomyces cerevisiae inviable yeastgenome
PBANKA_0927800 Plasmodium berghei Essential plasmo
TGME49_315810 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • sidik A Genome-wide CRISPR Screen in Toxoplasma Identifies Essential Apicomplexan Genes. Sidik, Saima M., et al. "A genome-wide CRISPR screen in toxoplasma identifies essential apicomplexan genes." Cell 166.6 (2016): 1423-1435.
  • goodall The Essential Genome of Escherichia coli K-12 (Transposon directed high-throughput mutagenesis) Goodall, Emily CA, et al. "The essential genome of Escherichia coli K-12." mBio 9.1 (2018): e02096-17.
  • plasmo Functional Profiling of a Plasmodium Genome Reveals an Abundance of Essential Genes. Bushell, Ellen, et al. "Functional profiling of a Plasmodium genome reveals an abundance of essential genes." Cell 170.2 (2017): 260-272.

Phenotypes and Validation (curated)

We have no manually annotated phenotypes for this target. What does this mean? / Care to help?

In TDR Targets, information about phenotypes that are caused by drugs, or by genetic manipulation of cells (e.g. gene knockouts or knockdowns) is manually curated from the literature. These descriptions help to describe the potential of the target for drug development. If no information is available for this gene or if the information is incomplete, this may mean that i) the papers containing this information either appeared after the curation effort for this organism was carried out or they were inadvertently missed by curators; or that ii) the curation effort for this organism has not yet started.

In any case, if you have information about papers containing relevant validation data for this target, please contact us.

Annotated validation

No validation data for this target

Associated compounds / Druggability

Known modulators for this target

No chemical compounds associated to this gene

Predicted associations

By orthology with druggable targets
Non orthologous druggable targets
By sequence similarity to non orthologous druggable targets
No additional associated druggable targets
Obtained from network model
No druggable targets predicted through repurposing network model

Assayability

Assay information

No assay information for this target.

Reagent availability

No reagent availability information for this target.

Bibliographic References

No literature references available for this target.

If you have references for this gene, please enter them in a user comment (below) or Contact us.

User comments

No user comments are available for this gene. Log in to add comments, or register.

Enter your comment

User ()
Gene identifier LmjF.04.1190 (Leishmania major), tRNA nucleotidyltransferase, putative
Title for this comment
Comment