ArticlePatterns (New York, N.Y.)2020
A Searchable Database of Crystallization Cocktails in the PDB: Analyzing the Chemical Condition Space.
Article in Patterns (New York, N.Y.), 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.
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.
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.
Who cites it
6 citing papers in PubMed, 12 citations in OpenAlex.
- Shoebill: an interpretable AlphaFold2-informed predictor of protein crystallization propensity using XGBoost.Briefings in bioinformatics · 2026Article
- Preparing for successful protein crystallization experiments.Acta crystallographica. Section F, Structural biology communications · 2025Article
- High-Throughput Screening to Obtain Crystal Hits for Protein Crystallography.Journal of visualized experiments : JoVE · 2023Article
- 20 years of crystal hits: progress and promise in ultrahigh-throughput crystallization screening.Acta crystallographica. Section D, Structural biology · 2023Article
- Article
- IceBear: an intuitive and versatile web application for research-data tracking from crystallization experiment to PDB deposition.Acta crystallographica. Section D, Structural biology · 2021Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors at 2 institutions in 1 country.
Funding
Abstract
Nearly 90% of structural models in the Protein Data Bank (PDB), the central resource worldwide for three-dimensional structural information, are currently derived from macromolecular crystallography (MX). A major bottleneck in determining MX structures is finding conditions in which a biomolecule will crystallize. Here, we present a searchable database of the chemicals associated with successful crystallization experiments from the PDB. We use these data to examine the relationship between protein secondary structure and average molecular weight of polyethylene glycol and to investigate patterns in crystallization conditions. Our analyses reveal striking patterns of both redundancy of chemical compositions in crystallization experiments and extreme sparsity of specific chemical combinations, underscoring the challenges faced in generating predictive models for
Identifiers
What OpenQuestion holds
Registered trials
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.