Published August 2021 | Version v1
Journal article Metadata-only

Gold nanoparticles and tilt pairs to assess protein flexibility by cryo-electron microscopy

Creators

  • 1. Department of Electrical Engineering, Stanford University, Stanford, CA (United States)
  • 2. Department of Computer Science, Stanford University, Stanford, CA (United States)
  • 3. Department of Biological Sciences, Konkuk University, Seoul (Korea, Republic of)
  • 4. Department of Structural Biology, Stanford University School of Medicine, Stanford, CA (United States)
  • 5. Institute for Computational and Mathematical Engineering, Stanford University, Stanford, CA (United States)
  • 6. Department of Molecular and Cellular Physiology, Stanford University School of Medicine, Stanford, CA (United States)

Description

A computational method was developed to recover the three-dimensional coordinates of gold nanoparticles specifically attached to a protein complex from tilt-pair images collected by electron microscopy. The program was tested on a simulated dataset and applied to a real dataset comprising tilt-pair images recorded by cryo electron microscopy of RNA polymerase II in a complex with four gold-labeled single-chain antibody fragments. The positions of the gold nanoparticles were determined, and comparison of the coordinates among the tetrameric particles revealed the range of motion within the protein complexes.

Availability note (English)

Available from http://dx.doi.org/10.1016/j.ultramic.2021.113302

Additional details

Identifiers

DOI
10.1016/j.ultramic.2021.113302;
PII
S0304399121000899;

Publishing Information

Journal Title
Ultramicroscopy (Amsterdam)
Journal Volume
227
Journal Page Range
vp.
ISSN
0304-3991
CODEN
ULTRD6

INIS

Country of Publication
Netherlands
Country of Input or Organization
International Atomic Energy Agency (IAEA)
INIS RN
54112328
Subject category
S46: INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND TECHNOLOGY; S60: APPLIED LIFE SCIENCES;
Descriptors DEI
ANTIBODIES; COMPUTERIZED SIMULATION; ELECTRON MICROSCOPY; FLEXIBILITY; GOLD; LEAST SQUARE FIT; NANOPARTICLES; RNA; RNA POLYMERASES; THREE-DIMENSIONAL LATTICES
Descriptors DEC
CRYSTAL LATTICES; CRYSTAL STRUCTURE; ELEMENTS; ENZYMES; MATHEMATICAL SOLUTIONS; MAXIMUM-LIKELIHOOD FIT; MECHANICAL PROPERTIES; METALS; MICROSCOPY; NUCLEIC ACIDS; NUCLEOTIDYLTRANSFERASES; NUMERICAL SOLUTION; ORGANIC COMPOUNDS; PARTICLES; PHOSPHORUS-GROUP TRANSFERASES; POLYMERASES; PROTEINS; SIMULATION; TENSILE PROPERTIES; TRANSFERASES; TRANSITION ELEMENTS

Optional Information

Notes
Published by Elsevier B.V.