6TJP

Crystal structure of T7 bacteriophage portal protein, 13mer, closed valve - P212121

Summary for 6TJP

• Entry DOI: 10.2210/pdb6tjp/pdb
• Related: 6QWP 6QX5 6QXM 6R21
• EMDB information: 4667 4669 4706
• Descriptor: Portal protein (1 entity in total)
• Functional Keywords: viral protein, dna packaging
• Biological source: Enterobacteria phage T7
• Total number of polymer chains: 13
• Total formula weight: 769261.79

Authors

Fabrega-Ferrer, M.,Cuervo, A.,Fernandez, F.J.,Machon, C.,Perez-Luque, R.,Pous, J.,Vega, M.C.,Carrascosa, J.L.,Coll, M. (deposition date: 2019-11-26, release date: 2020-12-16, Last modification date: 2024-05-01)

Primary citation

Fabrega-Ferrer, M.,Cuervo, A.,Fernandez, F.J.,Machon, C.,Perez-Luque, R.,Pous, J.,Vega, M.C.,Carrascosa, J.L.,Coll, M.
Using a partial atomic model from medium-resolution cryo-EM to solve a large crystal structure.
Acta Crystallogr D Struct Biol, 77:11-18, 2021

PubMed Abstract: 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.

PubMed: 33404521
DOI: 10.1107/S2059798320015156

Experimental method

X-RAY DIFFRACTION (3.74 Å)