Evidence map›Paper›PMID 31475929›Full record

ArticleActa crystallographica. Section F, Structural biology communications2019

Structure of the dihydrolipoamide succinyltransferase catalytic domain from Escherichia coli in a novel crystal form: a tale of a common protein crystallization contaminant.

Babak Andi, Alexei S Soares, Wuxian Shi, Martin R Fuchs, Sean McSweeney, Qun Liu

Open access · hybridAbstract read
In one paragraph

Article in Acta crystallographica. Section F, Structural biology communications, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.

0numbers the graph read from it
0cells of the map it votes in
6citing papers in PubMed
0.9field-weighted citation impact, top 29% of its field
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

6 citing papers in PubMed, 11 citations in OpenAlex.

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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

6 authors at 1 institution in 1 country.

Babak AndiNational Synchrotron Light Source II, Brookhaven National Laboratory, Upton, NY 11973-5000, USA.ORCID 0000-0002-7666-639X
Alexei S SoaresNational Synchrotron Light Source II, Brookhaven National Laboratory, Upton, NY 11973-5000, USA.
Wuxian ShiNational Synchrotron Light Source II, Brookhaven National Laboratory, Upton, NY 11973-5000, USA.
Martin R FuchsNational Synchrotron Light Source II, Brookhaven National Laboratory, Upton, NY 11973-5000, USA.ORCID 0000-0001-9784-0927
Sean McSweeneyNational Synchrotron Light Source II, Brookhaven National Laboratory, Upton, NY 11973-5000, USA.ORCID 0000-0002-3758-3161
Qun LiuNational Synchrotron Light Source II, Brookhaven National Laboratory, Upton, NY 11973-5000, USA.ORCID 0000-0002-1179-290X
Brookhaven National Laboratory · US

Funding

X-ray Scattering Technology CoreP30GM133893 · NIGMS · BROOKHAVEN SCIENCE ASSOC-BROOKHAVEN LAB · PI Sean McSweeney · 2019 to 2026
$38.6M
Life Science and Biomedical technology Research center at NSLS-II LSBRP41GM111244 · NIGMS · BROOKHAVEN SCIENCE ASSOC-BROOKHAVEN LAB · PI MCSWEENEY, SEAN · 2014 to 2018
$16.4M
DOE Office of Biological and Environmental Research KP1605010National Institutes of Health, National Institute of General Medical Sciences P41GM111244NIGMS NIH HHS P30 GM133893NIGMS NIH HHS P41 GM111244
6 · The paper itself

Abstract

The crystallization of amidase, the ultimate enzyme in the Trp-dependent auxin-biosynthesis pathway, from Arabidopsis thaliana was attempted using protein samples with at least 95% purity. Cube-shaped crystals that were assumed to be amidase crystals that belonged to space group I4 (unit-cell parameters a = b = 128.6, c = 249.7 Å) were obtained and diffracted to 3.0 Å resolution. Molecular replacement using structures from the PDB containing the amidase signature fold as search models was unsuccessful in yielding a convincing solution. Using the Sequence-Independent Molecular replacement Based on Available Databases (SIMBAD) program, it was discovered that the structure corresponded to dihydrolipoamide succinyltransferase from Escherichia coli (PDB entry 1c4t), which is considered to be a common crystallization contaminant protein. The structure was refined to an R

Indexed as

AcyltransferasesAmidohydrolasesArabidopsisCatalytic DomainCrystallography, X-RayEscherichia coliModels, MolecularAcyltransferasesamidaseAmidohydrolasesdihydrolipoamide succinyltransferaseamidaseauxincontaminant crystallizationdihydrolipoamide succinyltransferasemolecular replacementprotein crystallography

Identifiers

PMID31475929
PMCPMC6718150
OpenAlexW2970896495

What OpenQuestion holds

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LicenceCC BY
Read underepoch 390

Registered trials

None linked

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.