Detailed view for LmjF.18.0680

Basic information

TDR Targets ID: 23123
Leishmania major, citrate synthase, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 7.1444 | Length (AA): 470 | MW (Da): 52329 | Paralog Number: 1

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

PF00285   Citrate synthase, C-terminal domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0046912   transferase activity, transferring acyl groups, acyl groups converted into alkyl on transfer  
GO:0006101   citrate metabolic process  
GO:0004108   citrate (Si)-synthase activity  
GO:0044262   cellular carbohydrate metabolic process  
GO:0006099   tricarboxylic acid cycle  

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
23 465 1k3p (A) 1 420 25.00 0 1 1.04 0.04
25 461 1csc () 6 430 56.00 0 1 1.69 -1.49
18 469 3enj (A) 2 436 56.00 0 1 1.623 -0.63

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 80-100% percentile metacyclic. Fernandes MC
Upregulation Percent Ranking Stage Dataset
Lower 20-40% 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_127570)

Species Accession Gene Product
Arabidopsis thaliana AT2G44350   citrate synthase 4
Arabidopsis thaliana AT3G60100   citrate synthase 5
Babesia bovis BBOV_II006920   citrate synthase
Brugia malayi Bm1_19445   Probable citrate synthase, mitochondrial precursor, putative
Candida albicans CaO19.4393   nuclear citrate synthase
Candida albicans CaO19.11871   nuclear citrate synthase
Caenorhabditis elegans CELE_T20G5.2   Protein CTS-1
Dictyostelium discoideum DDB_G0275311   citrate synthase, mitochondrial
Drosophila melanogaster Dmel_CG3861   knockdown
Echinococcus granulosus EgrG_001028500   citrate synthase
Echinococcus multilocularis EmuJ_001028500   citrate synthase
Homo sapiens ENSG00000257727   canopy FGF signaling regulator 2
Homo sapiens ENSG00000062485   citrate synthase
Leishmania braziliensis LbrM.18.0760   citrate synthase, putative
Leishmania braziliensis LbrM.18.0770   citrate synthase, putative
Leishmania infantum LinJ.18.0700   citrate synthase, putative
Leishmania infantum LinJ.18.0690   citrate synthase, putative
Leishmania major LmjF.18.0680   citrate synthase, putative
Leishmania major LmjF.18.0670   citrate synthase, putative
Leishmania mexicana LmxM.18.0680   citrate synthase, putative
Leishmania mexicana LmxM.18.0670   citrate synthase, putative
Loa Loa (eye worm) LOAG_03295   citrate synthase
Mus musculus ENSMUSG00000046934   citrate synthase like
Mus musculus ENSMUSG00000005683   citrate synthase
Neospora caninum NCLIV_037460   hypothetical protein
Oryza sativa 4350660   Os11g0538900
Oryza sativa 4328598   Os02g0194100
Plasmodium berghei PBANKA_0506700   citrate synthase, mitochondrial, putative
Plasmodium falciparum PF3D7_1022500   citrate synthase, mitochondrial, putative
Plasmodium knowlesi PKNH_0606800   citrate synthase, mitochondrial, putative
Plasmodium vivax PVX_224290   unspecified product
Plasmodium vivax PVX_111595   citrate synthase, mitochondrial precursor, putative
Plasmodium vivax PVX_228290   unspecified product
Plasmodium yoelii PY01660   probable citrate synthase, mitochondrial precursor
Saccharomyces cerevisiae YNR001C   citrate (Si)-synthase CIT1
Saccharomyces cerevisiae YCR005C   citrate (Si)-synthase CIT2
Saccharomyces cerevisiae YPR001W   citrate (Si)-synthase CIT3
Schistosoma japonicum Sjp_0037110   ko:K01647 citrate synthase [EC2.3.3.1], putative
Trypanosoma brucei gambiense Tbg972.10.16220   citrate synthase, putative
Trypanosoma brucei Tb927.10.13430   citrate synthase, putative
Trypanosoma congolense TcIL3000_10_11540   citrate synthase, putative
Trypanosoma cruzi TcCLB.511277.110   citrate synthase, putative
Trypanosoma cruzi TcCLB.509801.30   citrate synthase, putative
Toxoplasma gondii TGME49_268890   citrate synthase I
Theileria parva TP02_0666   citrate synthase, putative

Essentiality

LmjF.18.0680 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.13430 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.10.13430 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.10.13430 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.10.13430 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_T20G5.2 Caenorhabditis elegans embryonic lethal wormbase
CELE_T20G5.2 Caenorhabditis elegans larval arrest wormbase
CELE_T20G5.2 Caenorhabditis elegans slow growth wormbase
CELE_T20G5.2 Caenorhabditis elegans sterile wormbase
TGME49_268890 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs

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
Saccharomyces cerevisiae citrate (Si)-synthase CIT2 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

  • Assay for Citrate Synthase (4.1.3.7 ) Sigma-Aldrich
  • Automatic link to known assays based on EC numbers.

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

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Gene identifier LmjF.18.0680 (Leishmania major), citrate synthase, putative
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