Evidence map›Paper›PMID 35163439›Full record

ArticleInternational journal of molecular sciences2022

Slipknot or Crystallographic Error: A Computational Analysis of the

Rolland B Tata, Ali F Alsulami, Olivier Sheik Amamuddy, Tom L Blundell, Özlem Tastan Bishop

Abstract read
In one paragraph

Article in International journal of molecular sciences, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing 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

2 citing papers in PubMed.

  1. AlphaFold predicts novel human proteins with knots.Protein science : a publication of the Protein Society · 2023
    Article
  2. Article
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

5 authors.

Rolland B TataResearch Unit in Bioinformatics (RUBi), Department of Biochemistry and Microbiology, Rhodes University, Grahamstown 6140, South Africa.ORCID 0000-0002-8814-5241
Ali F AlsulamiDepartment of Biochemistry, Sanger Building, University of Cambridge, Tennis Court Rd., Cambridge CB2 1GA, UK.
Olivier Sheik AmamuddyResearch Unit in Bioinformatics (RUBi), Department of Biochemistry and Microbiology, Rhodes University, Grahamstown 6140, South Africa.ORCID 0000-0002-1781-1382
Tom L BlundellDepartment of Biochemistry, Sanger Building, University of Cambridge, Tennis Court Rd., Cambridge CB2 1GA, UK.
Özlem Tastan BishopResearch Unit in Bioinformatics (RUBi), Department of Biochemistry and Microbiology, Rhodes University, Grahamstown 6140, South Africa.ORCID 0000-0001-6861-7849

Funding

H3ABioNet: informatics solutions for H3AfricaU24HG006941 · NHGRI · UNIVERSITY OF CAPE TOWN · PI MULDER, NICOLA · 2017 to 2021
$12.9M
NIH HHS U24HG006941Wellcome Trust 107740/Z/15/Z
6 · The paper itself

Abstract

The presence of protein structures with atypical folds in the Protein Data Bank (PDB) is rare and may result from naturally occurring knots or crystallographic errors. Proper characterisation of such folds is imperative to understanding the basis of naturally existing knots and correcting crystallographic errors. If left uncorrected, such errors can frustrate downstream experiments that depend on the structures containing them. An atypical fold has been identified in

Indexed as

Crystallography, X-RayDatabases, ProteinModels, MolecularMolecular Dynamics SimulationPlasmodium falciparumProtein ConformationProtein DomainsProtein FoldingProtozoan ProteinsSequence AlignmentSequence Analysis, ProteinSequence Homology, Amino AcidTetrahydrofolate DehydrogenaseProtozoan ProteinsTetrahydrofolate Dehydrogenaseatypical foldscrystallographic errorPDBP. falciparum DHFRslipknots

Identifiers

PMID35163439
PMCPMC8835989

What OpenQuestion holds

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LicenceCC BY
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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.