Identification and ranking of targets against neglected tropical diseases
TDR Targets ID: 6648 Mycobacterium tuberculosis, PROBABLE PENICILLIN-BINDING PROTEIN PBPA Source Database / ID: TubercuList / Rv0016c
pI: 8.56 | Length (AA): 491 | MW (Da): 51575 | Number of Paralogs: 1 | -.-.-.-
Signal peptide: Y | GPI Anchor: (Show evidence) | Predicted trans-membrane segments: 1
[DGPI v2.04]
PF00905 Transpeptidase
Biological Process: GO:0009273 peptidoglycan-based cell wall biogenesis [+/–] show term definition The chemical reactions and pathways resulting in the formation of the peptidoglycan-based cell wall.
The chemical reactions and pathways resulting in the formation of the peptidoglycan-based cell wall.
Molecular Function: GO:0008658 penicillin binding [+/–] show term definition Interacting selectively with penicillin, any antibiotic that contains the condensed beta-lactamthiazolidine ring system.
Interacting selectively with penicillin, any antibiotic that contains the condensed beta-lactamthiazolidine ring system.
This gene is not mapped to any metabolic pathway in KEGG.
No functional classes assigned to this gene.
Modbase 3D models: Rv0016c
PDB structures: no structure available for this protein in the PDB.
Upregulation ranking: this gene ranks in the mid 40-60% group of genes. Shows this level of upregulation in: Dormant phase.
Upregulation ranking: this gene ranks in the lower 20-40% group of genes. Shows this level of upregulation in: Dormant phase.
References murphy: Identification of gene targets against dormant phase Mycobacterium tuberculosis infections.. hasan: Prioritizing genomic drug targets in pathogens: application to Mycobacterium tuberculosis..
Number of putative antigenic epitopes: 21 Cumulative epitope score: 23.6 Normalized epitope score: 4.8 Percentile: 52.5 (this protein belongs to the top 47.5% proteins in the genome of Mycobacterium tuberculosis, based on the predicted antigenicity).
[+/–] More information on this prediction ...
Putative antigenic peptides were predicted using the method of Kolaskar and Tongaonkar, as implemented in EMBOSS (antigenic). Each predicted epitope has an associated score based on the physicochemical properties of the aminoacid residues. A cumulative antigenicity score was calculated as the sum of scores of all predicted epitopes in the protein. A normalized antigenicity index was calculated as the ratio of this cumulative score over the protein length. Finally, for each of these normalized antigenicity index values we calculated the percent of proteins for each genome that fall below it. Thus a protein with an antigenicity index percentile of 80 means that 80% of the proteins of the genome have a lower normalized antigenicity index score (i.e. this protein is amongst the top 20% of the proteins in these genome in terms of predicted antigenicity).
OrthoMCL cluster: OG1.2_9918 Number of Paralogs: 1 Escherichia coli K12 gi|16128618|ref|NP_415168.1| | OrthoMCL Mycobacterium leprae strain TN ML0018 | OrthoMCL Mycobacterium leprae strain TN ML1577 | OrthoMCL Mycobacterium tuberculosis Rv0016c (this record). | OrthoMCL Wolbachia endosymbiont of Brugia malayi Wbm0075 | OrthoMCL
[+/–] Show essentiality data references.
No manually curated information for this target.
Druggability index (max is 1): 0.5 Mean compound desirability (max is 1): Mean number of compounds:
Note: at this moment the information about chemical compounds linked to a gene, and the literature references associated with each gene are coming from a semi-automated scanning of a relevant subset of the literature. Manual curation for all target species is ongoing.
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No chemical compound is associated with this gene.
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Assay information
No assay information for this target.
Reagent availability
No reagent availability information for this target.
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Gene identifier: Rv0016c Mycobacterium tuberculosis, PROBABLE PENICILLIN-BINDING PROTEIN PBPA
No literature references are available for this gene.
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