Publication: The structural pathway of interleukin 1 (IL-1) initiated signaling reveals mechanisms of oncogenic mutations and SNPs in inflammation and cancer
dc.contributor.coauthor | Nussinov, Ruth | |
dc.contributor.department | Department of Computer Engineering | |
dc.contributor.department | Graduate School of Sciences and Engineering | |
dc.contributor.department | Department of Chemical and Biological Engineering | |
dc.contributor.department | CCBB (The Center for Computational Biology and Bioinformatics) | |
dc.contributor.kuauthor | Gürsoy, Attila | |
dc.contributor.kuauthor | Keskin, Özlem | |
dc.contributor.kuauthor | Özbabacan, Saliha Ece Acuner | |
dc.contributor.schoolcollegeinstitute | College of Engineering | |
dc.contributor.schoolcollegeinstitute | Research Center | |
dc.contributor.schoolcollegeinstitute | GRADUATE SCHOOL OF SCIENCES AND ENGINEERING | |
dc.date.accessioned | 2024-11-09T11:55:41Z | |
dc.date.issued | 2014 | |
dc.description.abstract | Structural pathways are important because they provide insight into signaling mechanisms; help understand the mechanism of disease-related mutations; and help in drug discovery. While extremely useful, common pathway diagrams lacking structural data are unable to provide mechanistic insight to explain oncogenic mutations or SNPs. Here we focus on the construction of the IL-1 structural pathway and map oncogenic mutations and SNPs to complexes in this pathway. Our results indicate that computational modeling of protein-protein interactions on a large scale can provide accurate, structural atom-level detail of signaling pathways in the human cell and help delineate the mechanism through which a mutation leads to disease. We show that the mutations either thwart the interactions, activating the proteins even in their absence or stabilize them, leading to the same uncontrolled outcome. Computational mapping of mutations on the interface of the predicted complexes may constitute an effective strategy to explain the mechanisms of mutations- constitutive activation or deactivation. | |
dc.description.fulltext | YES | |
dc.description.indexedby | WOS | |
dc.description.indexedby | Scopus | |
dc.description.indexedby | PubMed | |
dc.description.issue | 2 | |
dc.description.openaccess | YES | |
dc.description.publisherscope | International | |
dc.description.sponsoredbyTubitakEu | TÜBİTAK | |
dc.description.sponsorship | National Cancer Institute, National Institutes of Health | |
dc.description.sponsorship | Scientific and Technological Research Council of Turkey (TÜBİTAK) Fellowship | |
dc.description.version | Publisher version | |
dc.description.volume | 10 | |
dc.identifier.doi | 10.1371/journal.pcbi.1003470 | |
dc.identifier.eissn | 1553-7358 | |
dc.identifier.embargo | NO | |
dc.identifier.filenameinventoryno | IR00153 | |
dc.identifier.issn | 1553-734X | |
dc.identifier.quartile | Q1 | |
dc.identifier.scopus | 2-s2.0-84895765208 | |
dc.identifier.uri | https://hdl.handle.net/20.500.14288/831 | |
dc.identifier.wos | 332016700031 | |
dc.keywords | Mathematical and computational biology | |
dc.keywords | Somatic mutations | |
dc.keywords | Molecular docking | |
dc.keywords | Brain-tumors | |
dc.keywords | Data-bank | |
dc.keywords | Receptor | |
dc.keywords | Kinase | |
dc.keywords | Scale | |
dc.keywords | Expression | |
dc.keywords | Interfaces | |
dc.language.iso | eng | |
dc.publisher | Public Library of Science | |
dc.relation.grantno | HHSN261200800001E | |
dc.relation.grantno | 113E164 | |
dc.relation.ispartof | PLOS Computational Biology | |
dc.relation.uri | http://cdm21054.contentdm.oclc.org/cdm/ref/collection/IR/id/1183 | |
dc.subject | Biochemical research methods | |
dc.subject | Biochemistry and molecular biology | |
dc.title | The structural pathway of interleukin 1 (IL-1) initiated signaling reveals mechanisms of oncogenic mutations and SNPs in inflammation and cancer | |
dc.type | Journal Article | |
dspace.entity.type | Publication | |
local.contributor.kuauthor | Gürsoy, Attila | |
local.contributor.kuauthor | Özbabacan, Saliha Ece Acuner | |
local.contributor.kuauthor | Keskin, Özlem | |
local.publication.orgunit1 | College of Engineering | |
relation.isOrgUnitOfPublication | 89352e43-bf09-4ef4-82f6-6f9d0174ebae | |
relation.isOrgUnitOfPublication | 3fc31c89-e803-4eb1-af6b-6258bc42c3d8 | |
relation.isOrgUnitOfPublication | c747a256-6e0c-4969-b1bf-3b9f2f674289 | |
relation.isOrgUnitOfPublication | d31df7d7-274a-4cdd-9166-96a14ab5b0a0 | |
relation.isOrgUnitOfPublication.latestForDiscovery | 89352e43-bf09-4ef4-82f6-6f9d0174ebae | |
relation.isParentOrgUnitOfPublication | 8e756b23-2d4a-4ce8-b1b3-62c794a8c164 | |
relation.isParentOrgUnitOfPublication | d437580f-9309-4ecb-864a-4af58309d287 | |
relation.isParentOrgUnitOfPublication | 434c9663-2b11-4e66-9399-c863e2ebae43 | |
relation.isParentOrgUnitOfPublication.latestForDiscovery | 8e756b23-2d4a-4ce8-b1b3-62c794a8c164 |
Files
Original bundle
1 - 1 of 1