Publication:
Web interface for 3D visualization and analysis of SARS-CoV-2-human mimicry and interactions

dc.contributor.coauthorTsai, Chung-Jung
dc.contributor.coauthorNussinov, Ruth
dc.contributor.departmentDepartment of Computer Engineering
dc.contributor.departmentDepartment of Chemical and Biological Engineering
dc.contributor.departmentGraduate School of Sciences and Engineering
dc.contributor.kuauthorAbalı, Zeynep
dc.contributor.kuauthorGürsoy, Attila
dc.contributor.kuauthorKeskin, Özlem
dc.contributor.kuauthorKöroğlu, Yunus Emre
dc.contributor.kuauthorÖvek, Damla
dc.contributor.kuauthorTaweel, Ameer
dc.contributor.kuauthorTezsezen, Ece
dc.contributor.schoolcollegeinstituteCollege of Engineering
dc.contributor.schoolcollegeinstituteGRADUATE SCHOOL OF SCIENCES AND ENGINEERING
dc.date.accessioned2024-11-09T11:40:18Z
dc.date.issued2021
dc.description.abstractSummary: we present a web-based server for navigating and visualizing possible interactions between SARS-CoV-2 and human host proteins. The interactions are obtained from HMI_Pred which relies on the rationale that virus proteins mimic host proteins. The structural alignment of the viral protein with one side of the human protein-protein interface determines the mimicry. The mimicked human proteins and predicted interactions, and the binding sites are presented. The user can choose one of the 18 SARS-CoV-2 protein structures and visualize the potential 3D complexes it forms with human proteins. The mimicked interface is also provided. The user can superimpose two interacting human proteins in order to see whether they bind to the same site or different sites on the viral protein. The server also tabulates all available mimicked interactions together with their match scores and number of aligned residues. This is the first server listing and cataloging all interactions between SARS-CoV-2 and human protein structures, enabled by our innovative interface mimicry strategy.
dc.description.fulltextYES
dc.description.indexedbyWOS
dc.description.indexedbyScopus
dc.description.indexedbyPubMed
dc.description.issue5
dc.description.openaccessYES
dc.description.publisherscopeInternational
dc.description.sponsoredbyTubitakEuN/A
dc.description.sponsorshipNational Cancer Institute Federal Fund
dc.description.sponsorshipNational Institutes of Health (NIH)
dc.description.sponsorshipUnited States Department of Health & Human Services Federal Fund
dc.description.sponsorshipNIH Intramural Research Program
dc.description.sponsorshipNational Cancer Institute
dc.description.sponsorshipCenter for Cancer Research
dc.description.versionAuthor's final manuscript
dc.description.volume38
dc.identifier.doi10.1093/bioinformatics/btab799
dc.identifier.eissn1460-2059
dc.identifier.embargoNO
dc.identifier.filenameinventorynoIR03420
dc.identifier.issn1367-4803
dc.identifier.quartileQ1
dc.identifier.scopus2-s2.0-85125449595
dc.identifier.urihttps://hdl.handle.net/20.500.14288/216
dc.identifier.wos776280200039
dc.keywordsStructural prediction
dc.keywordsProtein
dc.keywordsServer
dc.language.isoeng
dc.publisherOxford University Press (OUP)
dc.relation.grantnoHHSN26120080001E
dc.relation.ispartofBioinformatics
dc.relation.urihttp://cdm21054.contentdm.oclc.org/cdm/ref/collection/IR/id/10206
dc.subjectBioinformatics
dc.subjectTwo-hybrid system techniques
dc.subjectPosition weight matrix
dc.titleWeb interface for 3D visualization and analysis of SARS-CoV-2-human mimicry and interactions
dc.typeJournal Article
dspace.entity.typePublication
local.contributor.kuauthorKeskin, Özlem
local.contributor.kuauthorGürsoy, Attila
local.contributor.kuauthorÖvek, Damla
local.contributor.kuauthorTaweel, Ameer
local.contributor.kuauthorAbalı, Zeynep
local.contributor.kuauthorTezsezen, Ece
local.contributor.kuauthorKöroğlu, Yunus Emre
local.publication.orgunit1College of Engineering
local.publication.orgunit1GRADUATE SCHOOL OF SCIENCES AND ENGINEERING
local.publication.orgunit2Department of Chemical and Biological Engineering
local.publication.orgunit2Department of Computer Engineering
local.publication.orgunit2Graduate School of Sciences and Engineering
relation.isOrgUnitOfPublication89352e43-bf09-4ef4-82f6-6f9d0174ebae
relation.isOrgUnitOfPublicationc747a256-6e0c-4969-b1bf-3b9f2f674289
relation.isOrgUnitOfPublication3fc31c89-e803-4eb1-af6b-6258bc42c3d8
relation.isOrgUnitOfPublication.latestForDiscovery89352e43-bf09-4ef4-82f6-6f9d0174ebae
relation.isParentOrgUnitOfPublication8e756b23-2d4a-4ce8-b1b3-62c794a8c164
relation.isParentOrgUnitOfPublication434c9663-2b11-4e66-9399-c863e2ebae43
relation.isParentOrgUnitOfPublication.latestForDiscovery8e756b23-2d4a-4ce8-b1b3-62c794a8c164

Files

Original bundle

Now showing 1 - 1 of 1
Thumbnail Image
Name:
10206.pdf
Size:
752.41 KB
Format:
Adobe Portable Document Format