Identification and ranking of targets against neglected tropical diseases
TDR Targets ID: 6990 Mycobacterium tuberculosis, DNA REPLICATION AND REPAIR PROTEIN RECF (SINGLE-STRAND DNA BINDING PROTEIN) Source Database / ID: TubercuList / Rv0003
pI: 7.2 | Length (AA): 385 | MW (Da): 42180 | Number of Paralogs: 1 | -.-.-.-
Signal peptide: N | GPI Anchor: (Show evidence) | Predicted trans-membrane segments: 0
[DGPI v2.04]
PF02463 SMC_N
Biological Process: GO:0051276 chromosome organization and biogenesis [+/–] show term definition The assembly and arrangement of chromosomes, structures composed of a very long molecule of DNA and associated proteins that carries hereditary information. GO:0006281 DNA repair [+/–] show term definition The process of restoring DNA after damage. Genomes are subject to damage by chemical and physical agents in the environment (e.g. UV and ionizing radiations, chemical mutagens, fungal and bacterial toxins, etc.) and by free radicals or alkylating agents endogenously generated in metabolism. DNA is also damaged because of errors during its replication. A variety of different DNA repair pathways have been reported that include direct reversal, base excision repair, nucleotide excision repair, photoreactivation, bypass, double-strand break repair pathway, and mismatch repair pathway.
The assembly and arrangement of chromosomes, structures composed of a very long molecule of DNA and associated proteins that carries hereditary information.
The process of restoring DNA after damage. Genomes are subject to damage by chemical and physical agents in the environment (e.g. UV and ionizing radiations, chemical mutagens, fungal and bacterial toxins, etc.) and by free radicals or alkylating agents endogenously generated in metabolism. DNA is also damaged because of errors during its replication. A variety of different DNA repair pathways have been reported that include direct reversal, base excision repair, nucleotide excision repair, photoreactivation, bypass, double-strand break repair pathway, and mismatch repair pathway.
Cellular component: GO:0005694 chromosome [+/–] show term definition A structure composed of a very long molecule of DNA and associated proteins (e.g. histones) that carries hereditary information.
A structure composed of a very long molecule of DNA and associated proteins (e.g. histones) that carries hereditary information.
Molecular Function: GO:0005524 ATP binding [+/–] show term definition Interacting selectively with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator." [ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology GO:0003697 single-stranded DNA binding [+/–] show term definition Interacting selectively with single-stranded DNA.
Interacting selectively with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator." [ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology
Interacting selectively with single-stranded DNA.
This gene is not mapped to any metabolic pathway in KEGG.
No functional classes assigned to this gene.
Modbase 3D models: Rv0003
PDB structures: no structure available for this protein in the PDB.
Upregulation ranking: this gene ranks in the lower 20-40% group of genes. Shows this level of upregulation in: Dormant phase.
Upregulation ranking: this gene ranks in the lower 0-20% 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: 18 Cumulative epitope score: 20.6 Normalized epitope score: 5.3 Percentile: 77.6 (this protein belongs to the top 22.4% 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_13072 Number of Paralogs: 1 Escherichia coli K12 gi|16131568|ref|NP_418155.1| | OrthoMCL Mycobacterium leprae strain TN ML0003 | OrthoMCL Mycobacterium tuberculosis Rv0003 (this record). | OrthoMCL Wolbachia endosymbiont of Brugia malayi Wbm0126 | OrthoMCL
[+/–] Show essentiality data references.
No manually curated information for this target.
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: Rv0003 Mycobacterium tuberculosis, DNA REPLICATION AND REPAIR PROTEIN RECF (SINGLE-STRAND DNA BINDING PROTEIN)
No literature references are available for this gene.
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