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TitleBenchmarking cryo-EM Single Particle Analysis Workflow.
Journal, issue, pagesFront Mol Biosci, Vol. 5, Page 50, Year 2018
Publish dateJun 4, 2018
AuthorsLaura Y Kim / William J Rice / Edward T Eng / Mykhailo Kopylov / Anchi Cheng / Ashleigh M Raczkowski / Kelsey D Jordan / Daija Bobe / Clinton S Potter / Bridget Carragher /
PubMed AbstractCryo electron microscopy facilities running multiple instruments and serving users with varying skill levels need a robust and reliable method for benchmarking both the hardware and software ...Cryo electron microscopy facilities running multiple instruments and serving users with varying skill levels need a robust and reliable method for benchmarking both the hardware and software components of their single particle analysis workflow. The workflow is complex, with many bottlenecks existing at the specimen preparation, data collection and image analysis steps; the samples and grid preparation can be of unpredictable quality, there are many different protocols for microscope and camera settings, and there is a myriad of software programs for analysis that can depend on dozens of settings chosen by the user. For this reason, we believe it is important to benchmark the entire workflow, using a standard sample and standard operating procedures, on a regular basis. This provides confidence that all aspects of the pipeline are capable of producing maps to high resolution. Here we describe benchmarking procedures using a test sample, rabbit muscle aldolase.
External linksFront Mol Biosci / PubMed:29951483 / PubMed Central
MethodsEM (single particle)
Resolution2.4 - 4.6 Å
Structure data

EMDB-7528:
Rabbit muscle aldolase at 2.8 A (17dec27a- 1st 382 img)
Method: EM (single particle) / Resolution: 2.8 Å

EMDB-7541:
Rabbit muscle aldolase at 2.4A resolution (17dec27a 205k particles, all images)
Method: EM (single particle) / Resolution: 2.4 Å

EMDB-7550:
Rabbit muscle aldolase at 2.4A resolution (17dec27a 205k particles, all images)
Method: EM (single particle) / Resolution: 2.4 Å

EMDB-7551:
Rabbit muscle aldolase at 3.0A resolution (17nov02c all img, 204k particles)
Method: EM (single particle) / Resolution: 3.0 Å

EMDB-7562:
Rabbit muscle aldolase at 3.5 A resolution (17nov02c less 25nm ice thickness, 22k particles)
Method: EM (single particle) / Resolution: 3.5 Å

EMDB-7614:
Rabbit muscle aldolase at 2.8 A resolution (17sep21j 1st 500 img, 62k particles)
Method: EM (single particle) / Resolution: 2.8 Å

EMDB-7615:
Rabbit muscle aldolase at 4.6 A resolution (17nov02c 1st700 img, 75k particles)
Method: EM (single particle) / Resolution: 4.6 Å

EMDB-7616:
Rabbit muscle aldolase at 2.5 A resolution (17sep21j all img, 219k particles)
Method: EM (single particle) / Resolution: 2.5 Å

EMDB-7617:
Rabbit muscle aldolase at 2.5 A resolution (17sep21j less 25nm ice thickness, 124k particles)
Method: EM (single particle) / Resolution: 2.5 Å

Source
  • Oryctolagus cuniculus (rabbit)

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