Detailed view for LmjF.34.2390

Basic information

TDR Targets ID: 26636
Leishmania major, centrin, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 4.2028 | Length (AA): 181 | MW (Da): 20784 | Paralog Number: 0

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

Druggability Group : DG2

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

PF00036   EF hand
PF13499   EF-hand domain pair

Gene Ontology

Mouse over links to read term descriptions.
GO:0005509   calcium ion binding  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 8 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
11 179 1kfu (L) 505 670 15.00 0.000028 1 1.08 -0.03
30 181 2ggm (A) 24 172 54.00 0 1 1.54 -1.33
112 177 1qx2 (A) 3 72 35.00 0.0000052 1 0.96 -2.21
30 181 3kf9 (A) 20 168 43.00 0.000015 1 1.36518 -0.33
31 181 5d43 (A) 25 172 53.00 0 1 1.55645 -1.26
31 181 3kf9 (A) 21 168 56.00 0 1 1.53625 -0.97
109 178 2pq3 (A) 6 75 40.00 0 1 1.09274 -2.41
152 181 1oqp (A) 140 169 40.00 0.81 0.95 0.590146 0.53

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_129380)

Species Accession Gene Product
Arabidopsis thaliana AT4G37010   centrin 2
Babesia bovis BBOV_IV005160   centrin 3, putative
Candida albicans CaO19.485   spindle pole body duplication
Candida albicans CaO19.8115   spindle pole body duplication
Cryptosporidium hominis Chro.50390   centrin
Cryptosporidium parvum cgd5_60   centrin like protein with 4x EF hands
Echinococcus granulosus EgrG_000504600   Calcium binding protein
Echinococcus granulosus EgrG_001089100   centrin 3
Echinococcus multilocularis EmuJ_001089100   centrin 3
Echinococcus multilocularis EmuJ_000504600   Calcium binding protein
Giardia lamblia GL50803_104685   Caltractin
Homo sapiens ENSG00000153140   centrin, EF-hand protein, 3
Leishmania braziliensis LbrM.20.1890   centrin, putative
Leishmania donovani LdBPK_342160.1   centrin, putative
Leishmania infantum LinJ.34.2160   centrin, putative
Leishmania major LmjF.34.2390   centrin, putative
Leishmania mexicana LmxM.33.2390   centrin, putative
Mus musculus ENSMUSG00000021537   centrin 3
Neospora caninum NCLIV_026390   centrin, putative
Oryza sativa 4348517   Os10g0389000
Plasmodium berghei PBANKA_0511800   centrin-3, putative
Plasmodium falciparum PF3D7_1027700   centrin-3
Plasmodium knowlesi PKNH_0612100   centrin-3, putative
Plasmodium vivax PVX_111335   centrin-3, putative
Plasmodium yoelii PY05880   centrin
Saccharomyces cerevisiae YOR257W   centrin
Schistosoma japonicum Sjp_0093910   Centrin-3, putative
Schistosoma mansoni Smp_083740   centrin
Schmidtea mediterranea mk4.006556.00   Centrin-3
Schmidtea mediterranea mk4.014258.01   Centrin-3
Trypanosoma brucei gambiense Tbg972.4.2220   centrin, putative
Trypanosoma brucei Tb927.4.2260   centrin-1
Trypanosoma congolense TcIL3000_4_2050   centrin, putative
Trypanosoma cruzi TcCLB.506559.380   centrin, putative
Toxoplasma gondii TGME49_260670   centrin, putative
Theileria parva TP01_0227   centrin, putative
Trichomonas vaginalis TVAG_306320   calcium binding protein, putative

Essentiality

LmjF.34.2390 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.4.2260 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.4.2260 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.4.2260 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.4.2260 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
YOR257W Saccharomyces cerevisiae inviable yeastgenome
TGME49_260670 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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.
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.
  • 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
  • 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

Druggability index (range: 0 to 1): 0.5

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
Species Target Length Identity Alignment span Linked Drugs Reference
Bos taurus Calmodulin 149 aa 39.7% 146 aa Compounds References
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.34.2390 (Leishmania major), centrin, putative
Title for this comment
Comment