Evidence map›Paper›PMID 27811937›Full record

ArticleNature communications2016

Selenium single-wavelength anomalous diffraction de novo phasing using an X-ray-free electron laser.

Mark S Hunter, Chun Hong Yoon, Hasan DeMirci, Raymond G Sierra, E Han Dao, Radman Ahmadi, Fulya Aksit, Andrew L Aquila, Halilibrahim Ciftci, Serge Guillet and 11 more

Abstract read
In one paragraph

Article in Nature communications, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 25 papers.

0numbers the graph read from it
0cells of the map it votes in
25citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

25 citing papers in PubMed.

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  14. SAD phasing of XFEL data depends critically on the error model.Acta crystallographica. Section D, Structural biology · 2019
    Article
  15. Article
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4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

21 authors.

Mark S HunterLinac Coherent Light Source, SLAC National Accelerator Laboratory, Menlo Park, California 94025, USA.
Chun Hong YoonLinac Coherent Light Source, SLAC National Accelerator Laboratory, Menlo Park, California 94025, USA.
Hasan DeMirciStanford PULSE Institute, SLAC National Accelerator Laboratory, Menlo Park, California 94025, USA.ORCID 0000-0002-9135-5397
Raymond G SierraLinac Coherent Light Source, SLAC National Accelerator Laboratory, Menlo Park, California 94025, USA.
E Han DaoStanford PULSE Institute, SLAC National Accelerator Laboratory, Menlo Park, California 94025, USA.
Radman AhmadiLinac Coherent Light Source, SLAC National Accelerator Laboratory, Menlo Park, California 94025, USA.
Fulya AksitStanford PULSE Institute, SLAC National Accelerator Laboratory, Menlo Park, California 94025, USA.
Andrew L AquilaLinac Coherent Light Source, SLAC National Accelerator Laboratory, Menlo Park, California 94025, USA.
Halilibrahim CiftciLinac Coherent Light Source, SLAC National Accelerator Laboratory, Menlo Park, California 94025, USA.
Serge GuilletLinac Coherent Light Source, SLAC National Accelerator Laboratory, Menlo Park, California 94025, USA.
Matt J HayesLinac Coherent Light Source, SLAC National Accelerator Laboratory, Menlo Park, California 94025, USA.
Thomas J LaneLinac Coherent Light Source, SLAC National Accelerator Laboratory, Menlo Park, California 94025, USA.
Meng LiangLinac Coherent Light Source, SLAC National Accelerator Laboratory, Menlo Park, California 94025, USA.
Ulf LundströmBiosciences Division, SLAC National Accelerator Laboratory, Menlo Park, California 94025, USA.
Jason E KoglinLinac Coherent Light Source, SLAC National Accelerator Laboratory, Menlo Park, California 94025, USA.ORCID 0000-0001-6811-6083
Paul MgbamLinac Coherent Light Source, SLAC National Accelerator Laboratory, Menlo Park, California 94025, USA.
Yashas RaoLinac Coherent Light Source, SLAC National Accelerator Laboratory, Menlo Park, California 94025, USA.
Lindsey ZhangLinac Coherent Light Source, SLAC National Accelerator Laboratory, Menlo Park, California 94025, USA.
Soichi WakatsukiLinac Coherent Light Source, SLAC National Accelerator Laboratory, Menlo Park, California 94025, USA.
James M HoltonStanford Synchrotron Radiation Lightsource, SLAC National Accelerator Laboratory, Menlo Park, California 94025, USA.
Sébastien BoutetLinac Coherent Light Source, SLAC National Accelerator Laboratory, Menlo Park, California 94025, USA.

Funding

ZWITTERION SURFACTANT DDMAB FOR IMPROV STABIL OF PROTEINP41RR001209 · NCRR · STANFORD UNIVERSITY · PI GONZALEZ, ANA M · 1985 to 2011
$38.9M
X-ray Absorption Spectroscopy (XAS) pp.711-759P41GM103393 · NIGMS · STANFORD UNIVERSITY · PI HODGSON, KEITH O · 2012 to 2019
$30.6M
NCRR NIH HHS P41 RR001209NIGMS NIH HHS P41 GM103393
6 · The paper itself

Abstract

Structural information about biological macromolecules near the atomic scale provides important insight into the functions of these molecules. To date, X-ray crystallography has been the predominant method used for macromolecular structure determination. However, challenges exist when solving structures with X-rays, including the phase problem and radiation damage. X-ray-free electron lasers (X-ray FELs) have enabled collection of diffraction information before the onset of radiation damage, yet the majority of structures solved at X-ray FELs have been phased using external information via molecular replacement. De novo phasing at X-ray FELs has proven challenging due in part to per-pulse variations in intensity and wavelength. Here we report the solution of a selenobiotinyl-streptavidin structure using phases obtained by the anomalous diffraction of selenium measured at a single wavelength (Se-SAD) at the Linac Coherent Light Source. Our results demonstrate Se-SAD, routinely employed at synchrotrons for novel structure determination, is now possible at X-ray FELs.

Indexed as

ElectronsLasersBacterial ProteinsBiotinCrystallography, X-RayFeasibility StudiesModels, MolecularProtein ConformationSeleniumBacterial ProteinsBiotinSeleniumselenobiotinyl streptavidin

Identifiers

PMID27811937
PMCPMC5097167

What OpenQuestion holds

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Registered trials

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.