Detailed view for ML2069

Basic information

TDR Targets ID: 256527
Mycobacterium leprae, PROBABLE MALATE SYNTHASE G GLCB
Source Database / ID:  Leproma 

pI: 4.8822 | Length (AA): 731 | MW (Da): 80142 | Paralog Number: 0

Signal peptide: N | GPI Anchor: | 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

PF01274   Malate synthase

Gene Ontology

Mouse over links to read term descriptions.
GO:0004474   malate synthase activity  
GO:0003824   catalytic activity  
GO:0006097   glyoxylate cycle  

Structural information

Modbase 3D models:

There are 2 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
1 730 6axe (A) 1 729 83.00 0 1 2.07693 -1.54
3 729 4ex4 (A) 3 729 99.99 0 1 2.16403 -1.4

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:

PDB tag
  • 1N8I:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 1N8W:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 2GQ3:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 4EX4:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date

Expression

No expression data available for this gene

Orthologs

Ortholog group members (OG5_159543)

Species Accession Gene Product
Escherichia coli b2976   malate synthase G
Mycobacterium leprae ML2069   PROBABLE MALATE SYNTHASE G GLCB
Mycobacterium tuberculosis Rv1837c   Malate synthase G GlcB
Mycobacterium ulcerans MUL_3055   malate synthase G

Essentiality

ML2069 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
mtu1867 Mycobacterium tuberculosis non-essential nmpdr
b2976 Escherichia coli non-essential goodall
Show/Hide essentiality data references
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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.
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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
  • 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
  • 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.
  • 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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database

Phenotypes and Validation (curated)

Annotated phenotypes:

Affected Entity Phenotypic quality Occurs in Occurs at Evidence Observed in Drugs/Inhibitors
catalytic activity (GO:0003824) decreased (PATO:0000468) in vitro (MI:0492) inferred from specific protein inhibition (ECO:0000020) Mycobacterium tuberculosis 311792   320674   574153   579838  
Annotator: crowther@u.washington.edu. Comment: 2008-01-02. References: 12393860
adhesion to host (GO:0044406) decreased (PATO:0000468) inferred from specific protein inhibition (ECO:0000020) Mycobacterium tuberculosis No drug identifiers listed for this gene.
Annotator: crowther@u.washington.edu. Comment: 2008-01-02. References: 16677310

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

Compound Source Reference
Curated by TDRTargets References
Curated by TDRTargets References
Curated by TDRTargets References
Curated by TDRTargets References

Predicted associations

By orthology with druggable targets
Species Known druggable target Linked compounds Reference
Mycobacterium tuberculosis Malate synthase G GlcB Compounds References
By sequence similarity to non orthologous druggable targets
No additional associated druggable targets
Obtained from network model

Ranking Plot

Putative Drugs List

Compound Raw Global Species
0.2572 0.3776 1
0.2259 0.3137 1
0.2572 0.3776 1
0.2754 0.2954 1
0.31 0.3242 0.4127
0.2342 0.3621 0.3774
0.1847 0.3587 0.3769
0.2572 0.3776 1
0.2028 0.2775 1
0.2292 0.4677 1
0.2028 0.2775 1
0.1038 0.3378 0.4483
0.2572 0.3776 1
0.2342 0.3621 0.3774
0.1616 0.2529 0.3684
0.2572 0.3776 1
0.1599 0.3225 0.4485
0.2572 0.3776 1
0.1038 0.3378 0.4483
0.2572 0.3776 1
0.2375 0.3616 0.3768
0.373 0.3242 0.4127
0.2779 0.2998 0.3406
0.2078 0.3617 0.3771

Assayability

Assay information

  • BRENDA Assay
  • An enzyme with this EC number or name or sequence has been assayed in Mycobacterium tuberculosis ( 1 )

Reagent availability

  • Reagent:
  • Target Type Source Notes
    ML2069 cloned gene BRENDA A gene with this EC number or name or sequence has been cloned from Mycobacterium tuberculosis ( 1 )

Bibliographic References

2 literature references were collected for this gene.

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 ML2069 (Mycobacterium leprae), PROBABLE MALATE SYNTHASE G GLCB
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