Evidence map›Paper›PMID 35167068›Full record

ArticleMethods in molecular biology (Clifton, N.J.)2022

Protocols for Rational Design of Protein Solubility and Aggregation Properties Using Aggrescan3D Standalone.

Aleksander Kuriata, Aleksandra E Badaczewska-Dawid, Jordi Pujols, Salvador Ventura, Sebastian Kmiecik

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Article in Methods in molecular biology (Clifton, N.J.), 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.

0numbers the graph read from it
0cells of the map it votes in
3citing 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

3 citing papers in PubMed.

  1. Article
  2. Review
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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

5 authors.

Aleksander KuriataFaculty of Chemistry, Biological and Chemical Research Centre, University of Warsaw, Warsaw, Poland.
Aleksandra E Badaczewska-DawidDepartment of Chemistry, Iowa State University, Ames, IA, USA.
Jordi PujolsInstitut de Biotecnologia i de Biomedicina (IBB), Universitat Autònoma de Barcelona, Bellaterra, Spain.
Salvador VenturaInstitut de Biotecnologia i de Biomedicina (IBB), Universitat Autònoma de Barcelona, Bellaterra, Spain.
Sebastian KmiecikBiological and Chemical Research Centre, University of Warsaw, Warsaw, Poland. sekmi@chem.uw.edu.pl.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Protein aggregation is a major hurdle in the development and manufacturing of protein-based therapeutics. Development of aggregation-resistant and stable protein variants can be guided by rational redesign using computational tools. Here, we describe the architecture and functionalities of the Aggrescan3D (A3D) standalone package for the rational design of protein solubility and aggregation properties based on three-dimensional protein structures. We present the case studies of the three therapeutic proteins, including antibodies, exploring the practical use of the A3D standalone tool. The case studies demonstrate that protein solubility can be easily improved by the A3D prediction of non-destabilizing amino acid mutations at the protein surfaces.

Indexed as

Protein AggregatesProteinsAmino AcidsSolubilityAmino AcidsProtein AggregatesProteinsAggregation predictionAggrescan3DComputational modelingProtein aggregationProtein designStructure-based design

Identifiers

PMID35167068

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.