Detailed view for LmjF.01.0830

Basic information

TDR Targets ID: 21683
Leishmania major, peptidyl dipeptidase, putative,metallo-peptidase, Clan MA(E), Family M3

Source Database / ID:  TriTrypDB  GeneDB

pI: 6.011 | Length (AA): 678 | MW (Da): 76003 | Paralog Number: 3

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

PF01432   Peptidase family M3

Gene Ontology

Mouse over links to read term descriptions.
GO:0008233   peptidase activity  
GO:0004222   metalloendopeptidase activity  
GO:0006508   proteolysis  

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
2 675 1y79 (1) 2 678 45.00 0 1 1.63 -1.47
1 676 4ka7 (A) 95 785 32.00 0 1 1.40685 -0.56
2 675 1y79 (1) 2 678 45.00 0 1 1.61 -0.93

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
Lower 0-20% percentile amastigotes, metacyclic. 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_127067)

Species Accession Gene Product
Arabidopsis thaliana AT5G10540   zincin-like metalloproteases family protein
Arabidopsis thaliana AT5G65620   organellar oligopeptidase A
Arabidopsis thaliana AT1G67690   zincin-like metalloproteases-like protein
Brugia malayi Bm1_40845   Peptidase family M3 containing protein
Candida albicans CaO19.8064   saccharolysin (oligopeptidase)
Candida albicans CaO19.434   saccharolysin (oligopeptidase)
Caenorhabditis elegans CELE_ZK550.3   Protein ZK550.3
Dictyostelium discoideum DDB_G0292362   peptidase M3A and M3B domain-containing protein
Drosophila melanogaster Dmel_CG11771   CG11771 gene product from transcript CG11771-RA
Drosophila melanogaster Dmel_CG3790   CG3790 gene product from transcript CG3790-RA
Escherichia coli b1538   dipeptidyl carboxypeptidase II
Escherichia coli b3498   oligopeptidase A
Entamoeba histolytica EHI_001080   hypothetical protein
Entamoeba histolytica EHI_185560   oligopeptidase A, putative
Homo sapiens ENSG00000123213   neurolysin (metallopeptidase M3 family)
Homo sapiens 7064   thimet oligopeptidase 1
Leishmania braziliensis LbrM.26.1590   thimet oligopeptidase, putative,metallo-peptidase, Clan MA(E), Family M3
Leishmania braziliensis LbrM.27.2760   peptidyl dipeptidase, putative,metallo-peptidase, Clan MA(E), Family M3
Leishmania braziliensis LbrM.27.1640   peptidyl dipeptidase, putative,metallo-peptidase, Clan MA(E), Family M3
Leishmania braziliensis LbrM.27.2780   metallo-peptidase, Clan MA(E), Family M3
Leishmania braziliensis LbrM.27.1650   peptidyl dipeptidase, putative,metallo-peptidase, Clan MA(E), Family M3
Leishmania donovani LdBPK_020710.1   peptidyl-dipeptidase, putative
Leishmania donovani LdBPK_261550.1   thimet oligopeptidase, putative
Leishmania donovani LdBPK_010850.1   peptidyl dipeptidase, putative
Leishmania infantum LinJ.26.1550   thimet oligopeptidase, putative,metallo-peptidase, Clan MA(E), Family M3
Leishmania infantum LinJ.02.0710   dipeptylcarboxypeptidase
Leishmania major LmjF.02.0740   dipeptylcarboxypeptidase, putative;with=GeneDB:LinJ02_V3.0710
Leishmania major LmjF.27.2660   peptidyl dipeptidase, putative,metallo-peptidase, Clan MA(E), Family M3
Leishmania major LmjF.01.0830   peptidyl dipeptidase, putative,metallo-peptidase, Clan MA(E), Family M3
Leishmania major LmjF.26.1570   thimet oligopeptidase, putative,metallo-peptidase, Clan MA(E), Family M3
Leishmania mexicana LmxM.26.1570   thimet oligopeptidase, putative,metallo-peptidase, Clan MA(E), Family M3
Leishmania mexicana LmxM.02.0740   peptidyl dipeptidase, putative,metallo-peptidase, Clan MA(E), Family M3
Loa Loa (eye worm) LOAG_03334   peptidase family M3 containing protein
Mus musculus ENSMUSG00000021710   neurolysin (metallopeptidase M3 family)
Mus musculus ensembl-mmu:ENSMUSG00000004929   thimet oligopeptidase 1
Oryza sativa 4331244   Os02g0830100
Oryza sativa 4325012   Os01g0902200
Onchocerca volvulus OVOC5353  
Saccharomyces cerevisiae YCL057W   Prd1p
Schistosoma japonicum Sjp_0015820   ko:K01392 thimet oligopeptidase [EC3.4.24.15], putative
Schistosoma mansoni Smp_029500   thimet oligopeptidase (M03 family)
Schistosoma mansoni Smp_029470   thimet oligopeptidase (M03 family)
Schmidtea mediterranea mk4.035936.00  
Schmidtea mediterranea mk4.005475.00  
Trypanosoma brucei gambiense Tbg972.7.70   thimet oligopeptidase A, putative,metallo- peptidase, Clan MA(E) Family M3, putative
Trypanosoma brucei Tb927.7.190   thimet oligopeptidase, putative
Trypanosoma congolense TcIL3000_7_10   thimet oligopeptidase, putative
Trypanosoma cruzi TcCLB.511237.10   thimet oligopeptidase, putative
Trypanosoma cruzi TcCLB.506411.10   thimet oligopeptidase, putative
Trichomonas vaginalis TVAG_477180   Clan MA, family M3, oligopeptidase A-like metallopeptidase

Essentiality

LmjF.01.0830 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.7.190 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.7.190 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.7.190 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.7.190 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
b1538 Escherichia coli non-essential goodall
b3498 Escherichia coli non-essential goodall
CELE_ZK550.3 Caenorhabditis elegans embryonic lethal wormbase
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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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.
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170

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

Druggability index (range: 0 to 1): 0.2


Known modulators for this target

No chemical compounds associated to this gene

Predicted associations

By orthology with druggable targets
Species Known druggable target Linked compounds Reference
Leishmania major dipeptylcarboxypeptidase, putative;with=GeneDB:LinJ02_V3.0710 Compounds References
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

1 literature reference was collected for this gene.

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

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Gene identifier LmjF.01.0830 (Leishmania major), peptidyl dipeptidase, putative,metallo-peptidase, Clan MA(E), Family M3
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