Detailed view for Rv1088

Basic information

TDR Targets ID: 6758
Mycobacterium tuberculosis, PE family protein PE9

Source Database / ID:  Tuberculist 

pI: 11.9023 | Length (AA): 144 | MW (Da): 15376 | Paralog Number: 31

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

Druggability Group : DG1

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

PF00934   PE family

Gene Ontology

Mouse over links to read term descriptions.
No GO information for this protein.

Metabolic Pathways

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

Structural information

Modbase 3D models:

There is 1 model calculated for this protein. More info on this model, including the model itself is available at: Modbase

Target Beg Target End Template Template Beg Template End Identity Evalue Model Score MPQS zDope
5 73 2k3n (A) 66 148 48.00 0.16 0.79 0.608067 2.24

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 Dormant phase. murphy
Upregulation Percent Ranking Stage Dataset
Mid 40-60% 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_132981)

Species Accession Gene Product
Mycobacterium leprae ML1183c   PE FAMILY PROTEIN
Mycobacterium leprae ML1053   PE FAMILY PROTEIN
Mycobacterium tuberculosis Rv0977   PE-PGRS family protein PE_PGRS16
Mycobacterium tuberculosis Rv1651c   PE-PGRS family protein PE_PGRS30
Mycobacterium tuberculosis Rv1169c   PE family protein. Possible lipase LipX.
Mycobacterium tuberculosis Rv3652   PE-PGRS family-related protein PE_PGRS60
Mycobacterium tuberculosis Rv0151c   PE family protein PE1
Mycobacterium tuberculosis Rv1172c   PE family protein PE12
Mycobacterium tuberculosis Rv1430   PE family protein PE16
Mycobacterium tuberculosis Rv1646   PE family protein PE17
Mycobacterium tuberculosis Rv1788   PE family protein PE18
Mycobacterium tuberculosis Rv1791   PE family protein PE19
Mycobacterium tuberculosis Rv0152c   PE family protein PE2
Mycobacterium tuberculosis Rv1806   PE family protein PE20
Mycobacterium tuberculosis Rv1195   PE family protein PE13
Mycobacterium tuberculosis Rv2328   PE family protein PE23
Mycobacterium tuberculosis Rv2431c   PE family protein PE25
Mycobacterium tuberculosis Rv2769c   PE family protein PE27
Mycobacterium tuberculosis Rv0159c   PE family protein PE3
Mycobacterium tuberculosis Rv3622c   PE family protein PE32
Mycobacterium tuberculosis Rv1214c   PE family protein PE14
Mycobacterium tuberculosis Rv0160c   PE family protein PE4
Mycobacterium tuberculosis Rv0916c   PE family protein PE7
Mycobacterium tuberculosis Rv1040c   PE family protein PE8
Mycobacterium tuberculosis Rv1088   PE family protein PE9
Mycobacterium tuberculosis Rv3650   PE family protein PE33
Mycobacterium tuberculosis Rv2408   Possible PE family-related protein PE24
Mycobacterium tuberculosis Rv0832   PE-PGRS family protein PE_PGRS12
Mycobacterium tuberculosis Rv0335c   PE family protein PE6
Mycobacterium tuberculosis Rv2519   PE family protein PE26
Mycobacterium tuberculosis Rv1800   PPE family protein PPE28
Mycobacterium tuberculosis Rv3812   PE-PGRS family protein PE_PGRS62
Mycobacterium tuberculosis Rv2608   PPE family protein PPE42
Mycobacterium tuberculosis Rv3477   PE family protein PE31
Mycobacterium ulcerans MUL_1450   PE-PGRS family protein
Mycobacterium ulcerans MUL_1034   PE family protein
Mycobacterium ulcerans MUL_3990   PE-PGRS family protein
Mycobacterium ulcerans MUL_2485   PE-PGRS family protein
Mycobacterium ulcerans MUL_3671   PE-PGRS family protein
Mycobacterium ulcerans MUL_2783   PE-PGRS family protein
Mycobacterium ulcerans MUL_3088   PE family protein
Mycobacterium ulcerans MUL_2354   PE-PGRS family protein
Mycobacterium ulcerans MUL_0740   PE-PGRS family protein
Mycobacterium ulcerans MUL_4909   PE-PGRS family protein
Mycobacterium ulcerans MUL_4620   PE family protein
Mycobacterium ulcerans MUL_2250   PE-PGRS family protein
Mycobacterium ulcerans MUL_3084   PE family protein
Mycobacterium ulcerans MUL_1149   PE-PGRS family protein
Mycobacterium ulcerans MUL_4381   PE-PGRS family protein
Mycobacterium ulcerans MUL_3741   N-term PE-PGRS family protein
Mycobacterium ulcerans MUL_0212   PE-PGRS family protein
Mycobacterium ulcerans MUL_1721   PE PGRS family protein
Mycobacterium ulcerans MUL_0569   PE PGRS family protein
Mycobacterium ulcerans MUL_3318   PE-PGRS family protein
Mycobacterium ulcerans MUL_1145   PE-PGRS family protein
Mycobacterium ulcerans MUL_4419   PE-PGRS family protein
Mycobacterium ulcerans MUL_3507   PE-PGRS family protein
Mycobacterium ulcerans MUL_4462   PE family protein
Mycobacterium ulcerans MUL_4399   PE-PGRS family protein
Mycobacterium ulcerans MUL_0190   PE-PGRS family protein
Mycobacterium ulcerans MUL_2440   PPE family protein
Mycobacterium ulcerans MUL_0355   PE-PGRS family protein
Mycobacterium ulcerans MUL_3292   PE-PGRS family protein
Mycobacterium ulcerans MUL_3672   PE-PGRS family protein
Mycobacterium ulcerans MUL_4196   PE family protein
Mycobacterium ulcerans MUL_4581   PE-PGRS family protein
Mycobacterium ulcerans MUL_4280   PE-PGRS family protein
Mycobacterium ulcerans MUL_1155   PE-PGRS family protein
Mycobacterium ulcerans MUL_0967   PE family protein
Mycobacterium ulcerans MUL_2853   PE-PGRS family protein
Mycobacterium ulcerans MUL_1640   PE-PGRS family protein
Mycobacterium ulcerans MUL_1718   PE-PGRS family protein
Mycobacterium ulcerans MUL_1632   PE family protein
Mycobacterium ulcerans MUL_3056   PE-PGRS family protein
Mycobacterium ulcerans MUL_3186   PE-PGRS family protein
Mycobacterium ulcerans MUL_1837   PE-PGRS family protein
Mycobacterium ulcerans MUL_4400   PE-PGRS family protein
Mycobacterium ulcerans MUL_1838   PE-PGRS family protein
Mycobacterium ulcerans MUL_1019   PE family protein
Mycobacterium ulcerans MUL_0946   PPE family protein
Mycobacterium ulcerans MUL_1339   PE-PGRS family protein
Mycobacterium ulcerans MUL_3062   PE-PGRS family protein
Mycobacterium ulcerans MUL_0570   PE PGRS family protein
Mycobacterium ulcerans MUL_0572   PE-PGRS family protein
Mycobacterium ulcerans MUL_4489   PE-PGRS family protein
Mycobacterium ulcerans MUL_4524   PE-PGRS family protein
Mycobacterium ulcerans MUL_3704   PE-PGRS family protein
Mycobacterium ulcerans MUL_3247   PE-PGRS family protein
Mycobacterium ulcerans MUL_4431   PE-PGRS family protein

Essentiality

Rv1088 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu992 Mycobacterium tuberculosis non-essential nmpdr
mtu1680 Mycobacterium tuberculosis non-essential nmpdr
mtu152 Mycobacterium tuberculosis non-essential nmpdr
mtu1453 Mycobacterium tuberculosis non-essential nmpdr
mtu1675 Mycobacterium tuberculosis non-essential nmpdr
mtu1819 Mycobacterium tuberculosis non-essential nmpdr
mtu153 Mycobacterium tuberculosis non-essential nmpdr
mtu2368 Mycobacterium tuberculosis non-essential nmpdr
mtu2473 Mycobacterium tuberculosis non-essential nmpdr
mtu2816 Mycobacterium tuberculosis non-essential nmpdr
mtu160 Mycobacterium tuberculosis non-essential nmpdr
mtu161 Mycobacterium tuberculosis non-essential nmpdr
mtu1106 this record Mycobacterium tuberculosis non-essential nmpdr
mtu2653 Mycobacterium tuberculosis non-essential nmpdr
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.
  • 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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • 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.
  • 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.
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource

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
Non orthologous druggable targets
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.

If you have references for this gene, please enter them in a user comment (below) or Contact us.

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Gene identifier Rv1088 (Mycobacterium tuberculosis), PE family protein PE9
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