Detailed view for LmxM.21.0120

Basic information

TDR Targets ID: 447948
Leishmania mexicana, calpain, putative,cysteine peptidase, Clan CA, family C2, putative

Source Database / ID: 

pI: 6.555 | Length (AA): 1626 | MW (Da): 180389 | Paralog Number: 0

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

Pfam domains

PF00648   Calpain family cysteine protease
PF01067   Calpain large subunit, domain III

Gene Ontology

Mouse over links to read term descriptions.
GO:0005622   intracellular  
GO:0004198   calcium-dependent cysteine-type endopeptidase activity  
GO:0006508   proteolysis  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 11 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
24 159 4r58 (A) 100 211 35.00 0.3 0.85 0.289441 0.1
29 201 4im6 (A) 809 981 17.00 0.91 0.77 0.372796 -0.49
32 174 2bnh (A) 141 282 25.00 0.99 0.91 0.376746 -0.17
40 170 4r5d (A) 242 369 29.00 0.001 1 0.486366 -0.75
61 174 1io0 (A) 197 313 18.00 0 1 0.408611 -1.03
92 184 5irm (A) 856 946 30.00 0.14 1 0.448996 -0.21
530 705 5cwi (A) 35 214 17.00 0 0.02 0.265741 -0.27
693 1030 2p0r (A) 26 337 25.00 0 0.96 0.331372 0.44
699 1174 3bow (A) 28 496 21.00 0 1 0.369243 0.85
717 1027 2p0r (A) 43 334 30.00 0 1 0.375067 0.47
1187 1320 2qfe (A) 685 813 15.00 0.000004 0.43 0.186811 -0.51

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

No expression data available for this gene

Orthologs

Ortholog group members (OG5_145341)

Species Accession Gene Product
Leishmania braziliensis LbrM.21.0160   calpain, putative,cysteine peptidase, Clan CA, family C2, putative
Leishmania donovani LdBPK_210160.1   cysteine peptidase, Clan CA, family C2, putative
Leishmania infantum LinJ.21.0160   calpain, putative,cysteine peptidase, Clan CA, family C2, putative
Leishmania infantum LinJ.21.0170   calpain, putative,cysteine peptidase, Clan CA, family C2, putative
Leishmania major LmjF.21.0120   calpain, putative,cysteine peptidase, Clan CA, family C2, putative
Leishmania mexicana LmxM.21.0120   calpain, putative,cysteine peptidase, Clan CA, family C2, putative
Trypanosoma brucei gambiense Tbg972.10.2280   calpain, putative,cysteine peptidase, Clan CA, family C2, putative
Trypanosoma brucei Tb927.10.1890   cysteine peptidase, Clan CA, family C2, putative
Trypanosoma cruzi TcCLB.510121.170   cysteine peptidase, Clan CA, family C2, putative
Trypanosoma cruzi TcCLB.506493.90   cysteine peptidase, Clan CA, family C2, putative

Essentiality

LmxM.21.0120 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.1890 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.10.1890 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.10.1890 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.10.1890 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
Show/Hide essentiality data references
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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.
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930

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 log in using your TDR Targets username and password and send them to us using the corresponding form in this page (only visible to registered users) or 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
Species Known druggable target Linked compounds Reference
Leishmania major calpain, putative,cysteine peptidase, Clan CA, family C2, putative 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

No literature references available for this target.

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User comments

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Gene identifier LmxM.21.0120 (Leishmania mexicana), calpain, putative,cysteine peptidase, Clan CA, family C2, putative
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