Detailed view for Rv0050

Basic information

TDR Targets ID: 981613
Mycobacterium tuberculosis, Probable bifunctional penicillin-binding protein 1A/1B PonA1 (murein polymerase) (PBP1): penicillin-insensitive transglycosylase
Source Database / ID:  Tuberculist 

pI: 4.9011 | Length (AA): 678 | MW (Da): 71118 | Paralog Number: 0

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

No Pfam domain information for this protein.

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 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
24 637 2olv (A) 68 682 27.00 0 1 1.0607 0.35
249 643 5crf (A) 249 643 99.99 0 1 1.779 -1.26

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

No expression data available for this gene

Orthologs

Ortholog group members (OG5_129763)

Species Accession Gene Product
Dictyostelium discoideum DDB_G0293028   hypothetical protein
Escherichia coli b0149   fused glycosyl transferase and transpeptidase
Escherichia coli b3396   fused penicillin-binding protein 1a: murein transglycosylase/murein transpeptidase
Mycobacterium leprae ML2688c   PROBABLE BIFUNCTIONAL PENICILLIN-BINDING PROTEIN 1A/1B PONA1 (MUREIN POLYMERASE) (PBP1): PENICILLIN-INSENSITIVE TRANSGLYCOSYLASE
Mycobacterium tuberculosis Rv0050   Probable bifunctional penicillin-binding protein 1A/1B PonA1 (murein polymerase) (PBP1): penicillin-insensitive transglycosylase
Mycobacterium ulcerans MUL_0068   bifunctional penicillin-binding protein 1A/1B PonA1
Neospora caninum NCLIV_025980   hypothetical protein
Schmidtea mediterranea mk4.057948.01  
Treponema pallidum TP0705   penicillin-binding protein (pbp-2)
Trichomonas vaginalis TVAG_243790   conserved hypothetical protein

Essentiality

Rv0050 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
b0149 Escherichia coli non-essential goodall
b3396 Escherichia coli non-essential goodall
Show/Hide essentiality data references
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.

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
Staphylococcus aureus PBP2 Compounds References
Streptococcus pneumoniae serotype 4 (strain ATCC BAA-334 / TIGR4) Penicillin-binding protein 1A Compounds References
Staphylococcus aureus Penicillin-binding protein 2 Compounds References
Pseudomonas aeruginosa Penicillin-binding protein 1B Compounds References
Pseudomonas aeruginosa PAO1 Penicillin-binding protein 1A 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
0.4464 0.4465 0.8078
0.2243 0.4023 0.5665
0.3329 0.422 0.7918
0.2352 0.4457 0.8072
0.4935 0.4396 0.7989
0.5386 0.446 0.8074
0.0344 0.4428 0.7485
0.2839 0.4457 0.8073
0.0196 0.3068 0
0.2176 0.4459 0.8074
0.243 0.4462 0.8076
0.0526 0.3635 0.7485
0.5017 0.4459 0.8069
0.0368 0.439 0.7485
0.5 0.446 0.8075
0.5344 0.4464 0.8076
0.3071 0.4339 0.7485
0.5472 0.4462 0.8075
0.537 0.4462 0.8075
0.0073 0.3195 0.4161
0.5514 0.4467 0.8075
0.548 0.4443 0.8061
0.5456 0.4467 0.8075
0.2352 0.4457 0.8072
0.554 0.4457 0.8068
0.031 0.3873 0.4132
0.2839 0.4457 0.8073
0.2203 0.3794 0.8073
0.1987 0.446 0.8075
0.4877 0.4362 0.7485
0.5207 0.4456 0.8067
0.5043 0.4462 0.8076
0.5418 0.3635 0.7485
0.0344 0.4428 0.7485
0.449 0.4373 0.7485
0.5302 0.4139 0.754
0.537 0.4462 0.8075
0.5507 0.4458 0.8073
0.0178 0.4058 0.7485
0.5628 0.3674 0.8073
0.537 0.4462 0.8075
0.035 0.4238 0.7485
0.0196 0.4226 0.7923
0.369 0.4432 0.7485
0.0329 0.4268 0.7485
0.5 0.446 0.8075
0.027 0.406 0.5232
0.2372 0.4462 0.8075
0.0278 0.2595 0.5439
0.0517 0.4306 0.7976
0.4975 0.3635 0.7485
0.0112 0.2916 0.4927
0.49 0.3635 0.7485
0.4978 0.3635 0.7485
0.0171 0.3409 0.5147
0.0326 0.4336 0.7485
0.5628 0.3674 0.8073
0.537 0.4462 0.8075
0.0196 0.3068 0
0.3038 0.4452 0.807
0.5943 0.3635 0.7485
0.1459 0.4231 0.8063
0.3095 0.3635 0.7485
0.2366 0.4462 0.8074
0.5302 0.4139 0.754
0.537 0.4462 0.8075
0.496 0.4021 0.7485
0.4464 0.4465 0.8078
0.3329 0.422 0.7918
0.4877 0.4362 0.7485
0.5439 0.3635 0.7485
0.5513 0.3635 0.7485
0.0455 0.3435 0.5232
0.5507 0.4458 0.8073
0.5132 0.4452 0.8063
0.5344 0.4464 0.8076
0.498 0.4464 0.8042
0.5628 0.3674 0.8073
0.3071 0.4339 0.7485
0.4978 0.3635 0.7485
0.5628 0.3674 0.8073
0.027 0.3951 0.5232
0.5215 0.4334 0.7994
0.0148 0.3892 0.7485
0.5017 0.4284 0.7485
0.0546 0.4311 0.7485
0.5628 0.3674 0.8073
0.5628 0.3674 0.8073
0.5507 0.4458 0.8073
0.5948 0.4404 0.7485
0.539 0.4464 0.8076
0.449 0.4373 0.7485
0.537 0.4462 0.8075
0.2839 0.4457 0.8073
0.0061 0.3077 0.3077
0.0095 0.4245 0.4658
0.2921 0.4465 0.8078
0.5116 0.4462 0.7485
0.5426 0.4463 0.8074
0.5527 0.4457 0.7485
0.0381 0.4387 0.7485
0.5472 0.4462 0.8075
0.4733 0.4452 0.8062
0.5506 0.4467 0.8075
0.0246 0.4084 0.5232
0.3329 0.422 0.7918
0.537 0.4462 0.8075
0.5628 0.3674 0.8073
0.2397 0.3414 0.6188
0.3826 0.4334 0.7485
0.537 0.4462 0.8075
0.467 0.3974 0.7485
0.5386 0.446 0.8074
0.4808 0.4457 0.8073
0.4411 0.373 0.7485
0.4897 0.3635 0.7485
0.0152 0.4051 0.5488
0.2731 0.4463 0.8076
0.5556 0.3635 0.7485
0.537 0.4462 0.8075
0.1468 0.4449 0.8068
0.5517 0.3635 0.7485
0.1826 0.4443 0.8056
0.5457 0.3635 0.7485
0.5 0.446 0.8075
0.5189 0.4464 0.8074
0.012 0.2951 0.7941
0.4978 0.3635 0.7485
0.5344 0.4464 0.8076
0.5628 0.3674 0.8073
0.0076 0.3872 0.767
0.0121 0.3889 0.7485
0.0067 0.3289 0.7485
0.5628 0.3674 0.8073
0.4733 0.4452 0.8062
0.5062 0.3635 0.7485
0.5036 0.4445 0.7485
0.0343 0.3635 0.7485
0.2149 0.2885 0.8072
0.219 0.4454 0.807
0.0365 0.3635 0.7485
0.5284 0.4457 0.7485
0.496 0.4021 0.7485
0.449 0.4373 0.7485
0.3669 0.4404 0.7485
0.537 0.4462 0.8075
0.5217 0.4448 0.8058
0.2352 0.4457 0.8072
0.0271 0.2683 0.2891
0.5528 0.4458 0.8069
0.027 0.4176 0.6006
0.0321 0.3896 0.7485
0.3071 0.4339 0.7485
0.1528 0.4384 0.7854
0.0178 0.4058 0.7485
0.5628 0.3674 0.8073
0.1966 0.2881 0.8072
0.7007 0.3635 0.7485
0.5343 0.3635 0.7485
0.5507 0.4458 0.8073
0.5386 0.446 0.8074
0.4808 0.4457 0.8073
0.5506 0.4467 0.8075
0.0196 0.4226 0.7923
0.5507 0.4458 0.8073
0.5017 0.4459 0.8069
0.092 0.4064 0.781
0.0196 0.3504 0.5206
0.0196 0.3504 0.5206
0.298 0.446 0.8071
0.0104 0.2889 0.5932
0.123 0.4434 0.8058
0.537 0.4462 0.8075
0.5454 0.4466 0.8078
0.5149 0.4467 0.7485
0.0223 0.3113 0
0.1338 0.4148 0.5555
0.2839 0.4457 0.8073
0.105 0.4401 0.8036
0.496 0.4021 0.7485
0.5628 0.3674 0.8073
0.0495 0.3635 0.7485
0.5507 0.4458 0.8073
0.5072 0.3635 0.7485
0.2797 0.4458 0.8069
0.1826 0.4443 0.8056
0.5017 0.4459 0.8069
0.2302 0.3993 0.7485
0.2168 0.4452 0.8061
0.0121 0.3889 0.7485
0.0355 0.3635 0.7485
0.3177 0.3027 0.8074
0.4564 0.4292 0.7485
0.0439 0.3635 0.7485
0.5628 0.3674 0.8073
0.4762 0.4308 0.7485
0.0137 0.3411 0.2652
0.4877 0.4362 0.7485
0.296 0.4463 0.8019
0.0381 0.4387 0.7485
0.505 0.4433 0.8058
0.5628 0.3674 0.8073
0.5553 0.3635 0.7485
0.5302 0.4139 0.754
0.0342 0.3469 0.3792
0.5386 0.446 0.8074
0.0278 0.2595 0.5439
0.2839 0.4457 0.8073
0.5628 0.3674 0.8073
0.5507 0.4458 0.8073
0.1643 0.4439 0.806
0.264 0.4465 0.8066
0.2352 0.4457 0.8072
0.5528 0.4458 0.8069

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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User comments

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Gene identifier Rv0050 (Mycobacterium tuberculosis), Probable bifunctional penicillin-binding protein 1A/1B PonA1 (murein polymerase) (PBP1): penicillin-insensitive transglycosylase
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