Detailed view for Rv2790c

Basic information

TDR Targets ID: 6395
Mycobacterium tuberculosis, Probable lipid-transfer protein Ltp1
Source Database / ID:  Tuberculist 

pI: 5.0062 | Length (AA): 401 | MW (Da): 42904 | Paralog Number: 1

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

PF00108   Thiolase, N-terminal domain
PF02803   Thiolase, C-terminal domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0016747   transferase activity, transferring groups other than amino-acyl groups  
GO:0003824   catalytic activity  
GO:0008152   metabolic process  

Structural information

Modbase 3D models:

There are 4 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
6 401 2wu9 (A) 48 444 20.00 0 1 1.04343 0.5
8 397 6et9 (A) 2 389 30.00 0 1 1.34597 -0.45
27 91 4yuc (A) 54 123 26.00 0.099 0.95 0.505495 -0.7
52 114 4mz0 (B) 173 232 40.00 0.99 0.22 0.451707 0.69

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 Dormant phase. murphy
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile Dormant phase. hasan
Show/Hide expression data references
  • murphy Identification of gene targets against dormant phase Mycobacterium tuberculosis infections.
  • hasan Prioritizing genomic drug targets in pathogens: application to Mycobacterium tuberculosis.

Orthologs

Ortholog group members (OG5_128557)

Species Accession Gene Product
Brugia malayi Bm1_53275   sterol carrier protein
Caenorhabditis elegans CELE_Y57A10C.6   Protein DAF-22
Drosophila melanogaster Dmel_CG17597   CG17597 gene product from transcript CG17597-RB
Drosophila melanogaster Dmel_CG17320   Sterol carrier protein X-related thiolase
Homo sapiens ENSG00000116171   sterol carrier protein 2
Leishmania braziliensis LbrM.23.0840   3-ketoacyl-CoA thiolase, putative
Leishmania donovani LdBPK_230860.1   3-ketoacyl-CoA thiolase-like protein
Leishmania infantum LinJ.23.0860   3-ketoacyl-CoA thiolase, putative
Leishmania major LmjF.23.0690   3-ketoacyl-CoA thiolase, putative
Leishmania mexicana LmxM.23.0690   3-ketoacyl-CoA thiolase-like protein
Loa Loa (eye worm) LOAG_16226   hypothetical protein
Loa Loa (eye worm) LOAG_15893   hypothetical protein
Loa Loa (eye worm) LOAG_13682   hypothetical protein
Loa Loa (eye worm) LOAG_13329   hypothetical protein
Loa Loa (eye worm) LOAG_12152   hypothetical protein
Loa Loa (eye worm) LOAG_15100   hypothetical protein
Loa Loa (eye worm) LOAG_13959   hypothetical protein
Loa Loa (eye worm) LOAG_14544   hypothetical protein
Mus musculus ENSMUSG00000028603   sterol carrier protein 2, liver
Mycobacterium tuberculosis Rv0914c   Possible lipid carrier protein or keto acyl-CoA thiolase
Mycobacterium tuberculosis Rv2790c   Probable lipid-transfer protein Ltp1
Mycobacterium ulcerans MUL_4955   lipid-transfer protein Ltp1
Mycobacterium ulcerans MUL_2143   lipid-transfer protein
Schmidtea mediterranea mk4.002756.03   Non-specific lipid-transfer protein-like
Schmidtea mediterranea mk4.003829.02  
Schmidtea mediterranea mk4.005896.01   Non-specific lipid-transfer protein
Schmidtea mediterranea mk4.023837.01   Non-specific lipid-transfer protein-like
Schmidtea mediterranea mk4.025329.00   Non-specific lipid-transfer protein
Schmidtea mediterranea mk4.078445.00  
Schmidtea mediterranea mk4.049830.00   Non-specific lipid-transfer protein-like
Schmidtea mediterranea mk4.016650.00  
Schmidtea mediterranea mk4.007043.00   Non-specific lipid-transfer protein
Schmidtea mediterranea mk4.030657.00   Non-specific lipid-transfer protein
Schmidtea mediterranea mk4.003904.00  
Trypanosoma brucei Tb927.8.2540   3-ketoacyl-CoA thiolase, putative
Trypanosoma cruzi TcCLB.510507.20   3-ketoacyl-CoA thiolase, putative
Trypanosoma cruzi TcCLB.509463.30   3-ketoacyl-CoA thiolase, putative

Essentiality

Rv2790c has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu2837 this record Mycobacterium tuberculosis non-essential nmpdr
mtu930 Mycobacterium tuberculosis non-essential nmpdr
Tb927.8.2540 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.8.2540 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.8.2540 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.8.2540 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_Y57A10C.6 Caenorhabditis elegans larval arrest wormbase
Show/Hide essentiality data references
  • 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.
  • 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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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.
  • 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
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan

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

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
Homo sapiens sterol carrier protein 2 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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Gene identifier Rv2790c (Mycobacterium tuberculosis), Probable lipid-transfer protein Ltp1
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