Publication:
Rapid and efficient ambient temperature X-ray crystal structure determination at Turkish Light Source

dc.contributor.departmentKUTTAM (Koç University Research Center for Translational Medicine)
dc.contributor.departmentDepartment of Molecular Biology and Genetics
dc.contributor.departmentKUYTAM (Koç University Surface Science and Technology Center)
dc.contributor.departmentGraduate School of Sciences and Engineering
dc.contributor.departmentSchool of Medicine
dc.contributor.kuauthorKarakadıoğlu, Gözde Usta
dc.contributor.kuauthorDemirci, Hasan
dc.contributor.kuauthorGül, Mehmet
dc.contributor.kuauthorJohnson, Jerome Austin
dc.contributor.kuauthorYılmaz, Merve Ümran
dc.contributor.kuauthorErtem, Fatma Betül
dc.contributor.kuauthorTokay, Nurettin
dc.contributor.kuauthorDestan, Ebru
dc.contributor.kuauthorAyan, Esra
dc.contributor.kuauthorGüven, Ömür
dc.contributor.kuauthorKepçeoğlu, Abdullah
dc.contributor.kuauthorTosun, Bilge
dc.contributor.kuauthorYapıcı, İlkin
dc.contributor.kuauthorBaldır, Nilüfer
dc.contributor.kuauthorNergiz, Zeliş
dc.contributor.kuauthorPaydos, Seyide Seda
dc.contributor.kuauthorKulakman, Cahine
dc.contributor.kuauthorAtalay, Necati
dc.contributor.kuauthorAkcan, Enver Kamil
dc.contributor.kuauthorAşçı, Bengisu
dc.contributor.kuauthorTavlı, Serra
dc.contributor.kuauthorFerah, Cengiz Kaan
dc.contributor.kuauthorKamel, Alaleh Shafiei
dc.contributor.kuauthorŞabanoğlu, Kardelen
dc.contributor.kuauthorArslan, Nazlı Eylül
dc.contributor.kuauthorÇetinok, Haluk
dc.contributor.kuauthorGümüşboğa, Helin
dc.contributor.schoolcollegeinstituteCollege of Sciences
dc.contributor.schoolcollegeinstituteGRADUATE SCHOOL OF SCIENCES AND ENGINEERING
dc.contributor.schoolcollegeinstituteResearch Center
dc.contributor.schoolcollegeinstituteSCHOOL OF MEDICINE
dc.date.accessioned2025-01-19T10:31:11Z
dc.date.issued2023
dc.description.abstractHigh-resolution biomacromolecular structure determination is essential to better understand protein function and dynamics. Serial crystallography is an emerging structural biology technique which has fundamental limitations due to either sample volume requirements or immediate access to the competitive X-ray beamtime. Obtaining a high volume of well-diffracting, sufficient-size crystals while mitigating radiation damage remains a critical bottleneck of serial crystallography. As an alternative, we introduce the plate-reader module adapted for using a 72-well Terasaki plate for biomacromolecule structure determination at a convenience of a home X-ray source. We also present the first ambient temperature lysozyme structure determined at the Turkish light source (Turkish DeLight). The complete dataset was collected in 18.5 min with resolution extending to 2.39 angstrom and 100% completeness. Combined with our previous cryogenic structure (PDB ID: 7Y6A), the ambient temperature structure provides invaluable information about the structural dynamics of the lysozyme. Turkish DeLight provides robust and rapid ambient temperature biomacromolecular structure determination with limited radiation damage.
dc.description.indexedbyWOS
dc.description.indexedbyScopus
dc.description.indexedbyPubMed
dc.description.issue1
dc.description.openaccessGreen Published, gold, Green Submitted
dc.description.publisherscopeInternational
dc.description.sponsoredbyTubitakEuN/A
dc.description.sponsorshipAuthors would like to dedicate this manuscript to the memory of Dr. Albert E. Dahlberg and Dr. Nizar Turker. The authors gratefully acknowledge use of the services and facilities of the Koc University Isbank Infectious Disease Center (KUISCID). H.D. acknowledges support from NSF Science and Technology Center grant NSF-1231306 (Biology with X-ray Lasers, BioXFEL). A.K. acknowledges support from Scientific and Technological Research Council of Tuerkiye (TUEBITAK, 2218-National Postdoctoral Research Fellowship Program under project number 118C476). B.V.K. is funded by TUEBITAK 2232 International Outstanding Researchers Program (Project No: 118C225). This publication has been produced benefiting from the 2232 International Fellowship for Outstanding Researchers Program, 2236 CoCirculation2 program and the 1001 Scientific and Technological Research Projects Funding Program of the TUEBITAK (Project Nos. 118C270, 121C063 and 120Z520). However, the entire responsibility of the publication belongs to the authors of the publication. The financial support received from TUEBITAK does not mean that the content of the publication is approved in a scientific sense by TUEBITAK. Coordinates of the lysozyme structure have been deposited in the Protein Data Bank under accession code 8H3W.
dc.description.volume13
dc.identifier.doi10.1038/s41598-023-33989-0
dc.identifier.issn2045-2322
dc.identifier.quartileQ1
dc.identifier.scopus2-s2.0-85159710572
dc.identifier.urihttps://doi.org/10.1038/s41598-023-33989-0
dc.identifier.urihttps://hdl.handle.net/20.500.14288/26181
dc.identifier.wos1001529400055
dc.keywordsCrystallography
dc.keywordsX-ray
dc.keywordsMuramidase
dc.keywordsSynchrotrons
dc.keywordsTemperature
dc.language.isoeng
dc.publisherNature Portfolio
dc.relation.grantnoNSF Science and Technology Center [NSF-1231306]; Scientific and Technological Research Council of Tuerkiye (TUEBITAK) [118C476]; TUEBITAK [118C225, 118C270, 121C063, 120Z520]
dc.relation.ispartofScientific Reports
dc.subjectMolecular biology and genetics
dc.titleRapid and efficient ambient temperature X-ray crystal structure determination at Turkish Light Source
dc.typeJournal Article
dspace.entity.typePublication
local.contributor.kuauthorGül, Mehmet
local.contributor.kuauthorAyan, Esra
local.contributor.kuauthorDestan, Ebru
local.contributor.kuauthorJohnson, Jerome Austin
local.contributor.kuauthorKepçeoğlu, Abdullah
local.contributor.kuauthorYılmaz, Merve Ümran
local.contributor.kuauthorErtem, Fatma Betül
local.contributor.kuauthorYapıcı, İlkin
local.contributor.kuauthorTosun, Bilge
local.contributor.kuauthorBaldır, Nilüfer
local.contributor.kuauthorTokay, Nurettin
local.contributor.kuauthorNergiz, Zeliş
local.contributor.kuauthorKarakadıoğlu, Gözde Usta
local.contributor.kuauthorPaydos, Seyide Seda
local.contributor.kuauthorKulakman, Cahine
local.contributor.kuauthorFerah, Cengiz Kaan
local.contributor.kuauthorGüven, Ömür
local.contributor.kuauthorAtalay, Necati
local.contributor.kuauthorAkcan, Enver Kamil
local.contributor.kuauthorÇetinok, Haluk
local.contributor.kuauthorAşçı, Bengisu
local.contributor.kuauthorTavlı, Serra
local.contributor.kuauthorGümüşboğa, Helin
local.contributor.kuauthorDemirci, Hasan
local.contributor.kuauthorKamel, Alaleh Shafiei
local.contributor.kuauthorArslan, Nazlı Eylül
local.contributor.kuauthorŞabanoğlu, Kardelen
local.publication.orgunit1GRADUATE SCHOOL OF SCIENCES AND ENGINEERING
local.publication.orgunit1SCHOOL OF MEDICINE
local.publication.orgunit1College of Sciences
local.publication.orgunit1Research Center
local.publication.orgunit2Department of Molecular Biology and Genetics
local.publication.orgunit2KUYTAM (Koç University Surface Science and Technology Center)
local.publication.orgunit2KUTTAM (Koç University Research Center for Translational Medicine)
local.publication.orgunit2School of Medicine
local.publication.orgunit2Graduate School of Sciences and Engineering
relation.isOrgUnitOfPublication91bbe15d-017f-446b-b102-ce755523d939
relation.isOrgUnitOfPublicationaee2d329-aabe-4b58-ba67-09dbf8575547
relation.isOrgUnitOfPublicationd41f66ba-d7a4-4790-9f8f-a456c391209b
relation.isOrgUnitOfPublication3fc31c89-e803-4eb1-af6b-6258bc42c3d8
relation.isOrgUnitOfPublicationd02929e1-2a70-44f0-ae17-7819f587bedd
relation.isOrgUnitOfPublication.latestForDiscovery91bbe15d-017f-446b-b102-ce755523d939
relation.isParentOrgUnitOfPublicationaf0395b0-7219-4165-a909-7016fa30932d
relation.isParentOrgUnitOfPublication434c9663-2b11-4e66-9399-c863e2ebae43
relation.isParentOrgUnitOfPublicationd437580f-9309-4ecb-864a-4af58309d287
relation.isParentOrgUnitOfPublication17f2dc8e-6e54-4fa8-b5e0-d6415123a93e
relation.isParentOrgUnitOfPublication.latestForDiscoveryaf0395b0-7219-4165-a909-7016fa30932d

Files

Original bundle

Now showing 1 - 1 of 1
Thumbnail Image
Name:
IR05486.pdf
Size:
6.97 MB
Format:
Adobe Portable Document Format