Detailed view for Rv1543

Basic information

TDR Targets ID: 8005
Mycobacterium tuberculosis, Possible fatty acyl-CoA reductase
Source Database / ID:  Tuberculist 

pI: 9.2662 | Length (AA): 341 | MW (Da): 36821 | 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

PF00106   short chain dehydrogenase

Gene Ontology

Mouse over links to read term descriptions.
GO:0016491   oxidoreductase activity  
GO:0005488   binding  
GO:0003824   catalytic activity  
GO:0008152   metabolic process  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 5 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
21 336 3hmj (A) 640 991 17.00 0 1 0.987586 0.53
46 75 4iuy (A) 2 30 52.00 0 0.85 0.508877 0.92
48 245 1zk4 (A) 1 195 31.00 0 1 0.982845 -0.46
50 274 3rkr (A) 3 235 35.00 0 1 1.15002 -0.84
51 240 3ucx (A) 5 189 31.00 0 1 0.903785 -0.96

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
Mid 40-60% percentile Dormant phase. murphy
Upregulation Percent Ranking Stage Dataset
Lower 0-20% 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_127561)

Species Accession Gene Product
Arabidopsis thaliana AT5G50770   hydroxysteroid dehydrogenase 6
Brugia malayi Bm1_37150   oxidoreductase, short chain dehydrogenase/reductase family protein
Brugia malayi Bm1_34450   oxidoreductase, short chain dehydrogenase/reductase family protein
Candida albicans CaO19_6502   hypothetical protein
Candida albicans CaO19.13855   potential short chain dehydrogenase
Candida albicans CaO19.6502   potential short chain dehydrogenase
Caenorhabditis elegans CELE_T05F1.10   Protein DHS-4
Caenorhabditis elegans CELE_T11F9.11   Protein DHS-19
Caenorhabditis elegans CELE_T02E1.5   Protein DHS-3, isoform C
Drosophila melanogaster Dmel_CG9265   CG9265 gene product from transcript CG9265-RB
Drosophila melanogaster Dmel_CG15629   CG15629 gene product from transcript CG15629-RA
Drosophila melanogaster Dmel_CG2254   CG2254 gene product from transcript CG2254-RA
Echinococcus granulosus EgrG_000992500   epidermal retinal dehydrogenase 2
Echinococcus multilocularis EmuJ_000992500   epidermal retinal dehydrogenase 2
Homo sapiens ENSG00000170786   short chain dehydrogenase/reductase family 16C, member 5
Loa Loa (eye worm) LOAG_02402   hypothetical protein
Loa Loa (eye worm) LOAG_04354   hypothetical protein
Mus musculus ENSMUSG00000071019   short chain dehydrogenase/reductase family 16C, member 6
Mus musculus ENSMUSG00000028236   short chain dehydrogenase/reductase family 16C, member 5
Mycobacterium tuberculosis Rv0547c   Possible oxidoreductase
Mycobacterium tuberculosis Rv1543   Possible fatty acyl-CoA reductase
Mycobacterium ulcerans MUL_4828   short-chain type dehydrogenase/reductase
Mycobacterium ulcerans MUL_0647   short chain dehydrogenase
Saccharomyces cerevisiae YDL114W   short-chain dehydrogenase/reductase
Schistosoma japonicum Sjp_0004470   Epidermal retinal dehydrogenase 2, putative
Schistosoma mansoni Smp_000190   oxidoreductase short chain dehydrogenase/reductase family
Schmidtea mediterranea mk4.008944.00  
Schmidtea mediterranea mk4.018229.00   Short-chain dehydrogenase/reductase 3
Schmidtea mediterranea mk4.000498.04  
Schmidtea mediterranea mk4.007890.00   Retinol dehydrogenase 10
Trypanosoma brucei gambiense Tbg972.10.8390   short-chain dehydrogenase, putative
Trypanosoma brucei Tb927.10.6870   short-chain dehydrogenase, putative
Trypanosoma congolense TcIL3000_10_5900   short-chain dehydrogenase, putative
Trypanosoma cruzi TcCLB.510187.74   short-chain dehydrogenase, putative

Essentiality

Rv1543 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu1571 this record Mycobacterium tuberculosis non-essential nmpdr
Tb927.10.6870 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.10.6870 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.10.6870 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.10.6870 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_T02E1.5 Caenorhabditis elegans embryonic lethal wormbase
Show/Hide essentiality data references
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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.
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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): 0.4

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
Macaca mulatta Hydroxysteroid 11-beta dehydrogenase 1 140 aa 33.3% 144 aa Compounds References
Obtained from network model

Ranking Plot

Putative Drugs List

Compound Raw Global Species
0.007 0.2916 1
0.0073 0.3141 0.4101
0.0021 0.3321 0.5
0.0058 0.3931 1
0.0004 0.5 0.5
0.0021 0.5 0.5
0.016 0.577 1
0.0005 0.5 0.5
0.0009 0.5 0.5
0.0157 0.5 0.5
0.0196 0.8679 0.5
0.0004 0.5 0.5
0.0108 0.5 0.5
0.007 1 0.5
0.0064 0.3508 0.5
0.007 1 0.5
0.0132 0.3658 0.376
0.0123 0.5 0.5
0.007 0.2916 1
0.004 0.5 0.5
0.0066 0.3586 0.5
0.0009 0.5 0.5
0.007 1 0.5
0.0106 1 0.5
0.0053 1 1
0.0402 1 1
0.0408 0.5144 0.5
0.0004 0.5 0.5
0.0004 0.5 0.5
0.0076 1 0.5
0.0009 0.5 0.5
0.0171 0.4063 0.5
0.0119 0.2746 0
0.0073 0.4546 1
0.0009 0.5 0.5
0.0013 0.5 0.5
0.0009 0.5 0.5
0.0085 1 0.5
0.0089 0.5 0.5
0.0165 1 0.5
0.0071 0.3141 0
0.0106 0.2872 0.4772
0.0082 1 0.5
0.0102 0.7451 0.5
0.0088 0.6544 0.5
0.0026 0.5 0.5
0.0035 1 0.5
0.0114 1 0.5
0.0068 0.2585 0.5
0.0131 0.5 0.5
0.0162 1 0.5
0.0068 1 0.5
0.0113 1 1
0.0021 0.3321 0.5
0.0058 1 1
0.0408 0.5144 0.5
0.0012 0.5 0.5
0.0171 0.4063 0.5
0.0073 0.3811 1
0.0039 1 0.5
0.0004 0.5 0.5
0.016 0.577 1
0.0004 0.5 0.5
0.0009 1 0.5
0.007 0.2916 1
0.0084 0.4283 1
0.0019 0.4322 0.5
0.0009 0.7374 0.5
0.0005 0.5 0.5
0.0222 0.5 0.5
0.0218 0.5 0.5
0.0067 0.3468 0.5
0.0068 1 0.5
0.0053 1 0.5
0.0056 0.875 1
0.0016 0.5 0.5
0.0106 1 1
0.0088 1 0.5
0.0012 0.5 0.5
0.0009 0.5 0.5
0.0009 0.5 0.5
0.0027 0.5 0.5
0.0073 0.3811 1
0.0118 1 0.5
0.0087 0.5 0.5
0.0013 1 0.5
0.0056 1 0.5
0.0057 0.284 0.6413
0.0196 0.8679 0.5
0.0009 0.5 0.5
0.0106 0.5 0.5
0.008 0.5 0.5
0.0093 0.5 0.5
0.0073 0.2873 0.3563
0.0089 0.5 0.5
0.0046 0.3082 0.5
0.0027 0.5 0.5
0.0114 1 0.5
0.0097 1 1
0.0045 1 0.5
0.0004 0.5 0.5
0.0408 0.5144 0.5
0.0097 0.4304 0.5
0.0032 1 1
0.0196 0.8679 0.5
0.011 0.3568 0.3299

Assayability

Assay information

No assay information for this target.

Reagent availability

No reagent availability information for this target.

Bibliographic References

9 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.

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Gene identifier Rv1543 (Mycobacterium tuberculosis), Possible fatty acyl-CoA reductase
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