Using a partial atomic model from medium-resolution cryo-EM to solve a large crystal structure.
bacteriophage portal
cryo-EM
density modification
molecular replacement
Journal
Acta crystallographica. Section D, Structural biology
ISSN: 2059-7983
Titre abrégé: Acta Crystallogr D Struct Biol
Pays: United States
ID NLM: 101676043
Informations de publication
Date de publication:
01 Jan 2021
01 Jan 2021
Historique:
received:
27
11
2019
accepted:
13
11
2020
entrez:
6
1
2021
pubmed:
7
1
2021
medline:
19
8
2021
Statut:
ppublish
Résumé
Medium-resolution cryo-electron microscopy maps, in particular when they include a significant number of α-helices, may allow the building of partial models that are useful for molecular-replacement searches in large crystallographic structures when the structures of homologs are not available and experimental phasing has failed. Here, as an example, the solution of the structure of a bacteriophage portal using a partial 30% model built into a 7.8 Å resolution cryo-EM map is shown. Inspection of the self-rotation function allowed the correct oligomerization state to be determined, and density-modification procedures using rotation matrices and a mask based on the cryo-EM structure were critical for solving the structure. A workflow is described that may be applicable to similar cases and this strategy is compared with direct use of the cryo-EM map for molecular replacement.
Identifiants
pubmed: 33404521
pii: S2059798320015156
doi: 10.1107/S2059798320015156
pmc: PMC7787105
doi:
Substances chimiques
Capsid Proteins
0
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Pagination
11-18Subventions
Organisme : Ministerio de Ciencia, Innovación y Universidades
ID : BFU2014-53550-P
Organisme : Ministerio de Ciencia, Innovación y Universidades
ID : BFU2017-83720-P
Organisme : Ministerio de Ciencia, Innovación y Universidades
ID : BFU2014-54181
Organisme : Ministerio de Ciencia, Innovación y Universidades
ID : SEV-2013-0347
Organisme : Ministerio de Ciencia, Innovación y Universidades
ID : RYC-2011-09071
Organisme : Ministerio de Ciencia, Innovación y Universidades
ID : SEV-2015-0500
Organisme : Ministerio de Ciencia, Innovación y Universidades
ID : MDM-2014-0435
Informations de copyright
open access.
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