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Gomez S, Adalid-Peralta L, Palafox-Fonseca H, Cantu-Robles VA, Soberón X, Sciutto E, Fragoso G, Bobes RJ, Laclette JP, Yauner LDP, Ochoa-Leyva A. Erratum: Genome analysis of Excretory/Secretory proteins in Taenia solium reveals their Abundance of Antigenic Regions (AAR). Sci Rep 2015; 5:12385. [PMID: 26373697 PMCID: PMC4570980 DOI: 10.1038/srep12385] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022] Open
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Gomez S, Adalid-Peralta L, Palafox-Fonseca H, Cantu-Robles VA, Soberón X, Sciutto E, Fragoso G, Bobes RJ, Laclette JP, Yauner LDP, Ochoa-Leyva A. Genome analysis of Excretory/Secretory proteins in Taenia solium reveals their Abundance of Antigenic Regions (AAR). Sci Rep 2015; 5:9683. [PMID: 25989346 PMCID: PMC4437048 DOI: 10.1038/srep09683] [Citation(s) in RCA: 38] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/29/2014] [Accepted: 03/16/2015] [Indexed: 11/09/2022] Open
Abstract
Excretory/Secretory (ES) proteins play an important role in the host-parasite interactions. Experimental identification of ES proteins is time-consuming and expensive. Alternative bioinformatics approaches are cost-effective and can be used to prioritize the experimental analysis of therapeutic targets for parasitic diseases. Here we predicted and functionally annotated the ES proteins in T. solium genome using an integration of bioinformatics tools. Additionally, we developed a novel measurement to evaluate the potential antigenicity of T. solium secretome using sequence length and number of antigenic regions of ES proteins. This measurement was formalized as the Abundance of Antigenic Regions (AAR) value. AAR value for secretome showed a similar value to that obtained for a set of experimentally determined antigenic proteins and was different to the calculated value for the non-ES proteins of T. solium genome. Furthermore, we calculated the AAR values for known helminth secretomes and they were similar to that obtained for T. solium. The results reveal the utility of AAR value as a novel genomic measurement to evaluate the potential antigenicity of secretomes. This comprehensive analysis of T. solium secretome provides functional information for future experimental studies, including the identification of novel ES proteins of therapeutic, diagnosis and immunological interest.
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Affiliation(s)
- Sandra Gomez
- Instituto Nacional de Neurología y Neurocirugía, México, D.F., C.P. 14269, México
| | - Laura Adalid-Peralta
- 1] Instituto Nacional de Neurología y Neurocirugía, México, D.F., C.P. 14269, México [2] Unidad Periférica del Instituto de Investigaciones Biomédicas en el Instituto Nacional de Neurología y Neurocirugía, México, D.F., C.P. 14269, México
| | | | - Vito Adrian Cantu-Robles
- Instituto Nacional de Medicina Genómica, Periférico Sur No. 4809, Col. Arenal Tepepan, Delegación Tlalpan, México, D.F. C.P. 14610, México
| | - Xavier Soberón
- 1] Instituto Nacional de Medicina Genómica, Periférico Sur No. 4809, Col. Arenal Tepepan, Delegación Tlalpan, México, D.F. C.P. 14610, México [2] Instituto de Biotecnología, Universidad Nacional Autónoma de México, Avenida Universidad 2001, Cuernavaca, Morelos, C.P. 62210, México
| | - Edda Sciutto
- Instituto de Investigaciones Biomédicas, Universidad Nacional Autónoma de México, México, D.F., C.P. 04510, México
| | - Gladis Fragoso
- Instituto de Investigaciones Biomédicas, Universidad Nacional Autónoma de México, México, D.F., C.P. 04510, México
| | - Raúl J Bobes
- Instituto de Investigaciones Biomédicas, Universidad Nacional Autónoma de México, México, D.F., C.P. 04510, México
| | - Juan P Laclette
- Instituto de Investigaciones Biomédicas, Universidad Nacional Autónoma de México, México, D.F., C.P. 04510, México
| | - Luis del Pozo Yauner
- Instituto Nacional de Medicina Genómica, Periférico Sur No. 4809, Col. Arenal Tepepan, Delegación Tlalpan, México, D.F. C.P. 14610, México
| | - Adrián Ochoa-Leyva
- Unidad de Genómica de Poblaciones Aplicada a la Salud, Facultad de Química, UNAM-Instituto Nacional de Medicina Genómica (INMEGEN), Periférico Sur No. 4809, Col. Arenal Tepepan, Delegación Tlalpan México, D.F. C.P. 14610, México
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Hernández-Santoyo A, del Pozo Yauner L, Fuentes-Silva D, Ortiz E, Rudiño-Piñera E, Sánchez-López R, Horjales E, Becerril B, Rodríguez-Romero A. A Single Mutation at the Sheet Switch Region Results in Conformational Changes Favoring λ6 Light-Chain Fibrillogenesis. J Mol Biol 2010; 396:280-92. [PMID: 19941869 DOI: 10.1016/j.jmb.2009.11.038] [Citation(s) in RCA: 33] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/01/2009] [Revised: 11/05/2009] [Accepted: 11/15/2009] [Indexed: 10/20/2022]
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del Pozo Yauner L, Ortiz E, Sánchez R, Sánchez-López R, Güereca L, Murphy CL, Allen A, Wall JS, Fernández-Velasco DA, Solomon A, Becerril B. Influence of the germline sequence on the thermodynamic stability and fibrillogenicity of human lambda 6 light chains. Proteins 2008; 72:684-92. [DOI: 10.1002/prot.21934] [Citation(s) in RCA: 53] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
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Rodríguez-Romero A, Hernández-Santoyo A, del Pozo Yauner L, Kornhauser A, Fernández-Velasco DA. Structure and inactivation of triosephosphate isomerase from Entamoeba histolytica. J Mol Biol 2002; 322:669-75. [PMID: 12270704 DOI: 10.1016/s0022-2836(02)00809-4] [Citation(s) in RCA: 46] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Abstract
Triosephosphate isomerase (TIM) has been proposed as a target for drug design. TIMs from several parasites have a cysteine residue at the dimer interface, whose derivatization with thiol-specific reagents induces enzyme inactivation and aggregation. TIMs lacking this residue, such as human TIM, are less affected. TIM from Entamoeba histolytica (EhTIM) has the interface cysteine residue and presents more than ten insertions when compared with the enzyme from other pathogens. To gain further insight into the role that interface residues play in the stability and reactivity of these enzymes, we determined the high-resolution structure and characterized the effect of methylmethane thiosulfonate (MMTS) on the activity and conformational properties of EhTIM. The structure of this enzyme was determined at 1.5A resolution using molecular replacement, observing that the dimer is not symmetric. EhTIM is completely inactivated by MMTS, and dissociated into stable monomers that possess considerable secondary structure. Structural and spectroscopic analysis of EhTIM and comparison with TIMs from other pathogens reveal that conformational rearrangements of the interface after dissociation, as well as intramonomeric contacts formed by the inserted residues, may contribute to the unusual stability of the derivatized EhTIM monomer.
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Affiliation(s)
- Adela Rodríguez-Romero
- Laboratorio Universitario de Estructura de Proteínas and Departamento de Bioquímica, Instituto de Química, Universidad Nacional Autónoma de México, DF, Mexico.
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