ArticleIUCrJ2018
Homology-based loop modeling yields more complete crystallographic protein structures.
Article in IUCrJ, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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Who cites it
16 citing papers in PubMed.
- Reconstructing biological molecules with help from video gamers.Acta crystallographica. Section D, Structural biology · 2025Article
- Ten rules for a structural bioinformatic analysis.PLoS computational biology · 2025Article
- Identifying and avoiding radiation damage in macromolecular crystallography.Acta crystallographica. Section D, Structural biology · 2024Article
- Caskin2 is a novel talin- and Abi1-binding protein that promotes cell motility.Journal of cell science · 2024Article
- AlphaFold predictions are valuable hypotheses and accelerate but do not replace experimental structure determination.Nature methods · 2024Article
- Neutron crystallographic refinement with REFMAC5 from the CCP4 suite.Acta crystallographica. Section D, Structural biology · 2023Article
- Analysis and validation of overall N-glycan conformation in Privateer.Acta crystallographica. Section D, Structural biology · 2023Article
- IDPConformerGenerator: A Flexible Software Suite for Sampling the Conformational Space of Disordered Protein States.The journal of physical chemistry. A · 2022Article
- The importance of residue-level filtering and the Top2018 best-parts dataset of high-quality protein residues.Protein science : a publication of the Protein Society · 2022Article
- New restraints and validation approaches for nucleic acid structures in PDB-REDO.Acta crystallographica. Section D, Structural biology · 2021Article
- Fucosidases from the human gut symbiont Ruminococcus gnavus.Cellular and molecular life sciences : CMLS · 2021Article
- LAHMA: structure analysis through local annotation of homology-matched amino acids.Acta crystallographica. Section D, Structural biology · 2021Article
- A Global Ramachandran Score Identifies Protein Structures with Unlikely Stereochemistry.Structure (London, England : 1993) · 2020Article
- The use of local structural similarity of distant homologues for crystallographic model building from a molecular-replacement solution.Acta crystallographica. Section D, Structural biology · 2020Article
- Autosomal Dominant Tubulointerstitial Kidney Disease with Adult Onset due to a Novel Renin Mutation Mapping in the Mature Protein.Scientific reports · 2019Article
- Building and rebuilding N-glycans in protein structure models.Acta crystallographica. Section D, Structural biology · 2019Article
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5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Inherent protein flexibility, poor or low-resolution diffraction data or poorly defined electron-density maps often inhibit the building of complete structural models during X-ray structure determination. However, recent advances in crystallographic refinement and model building often allow completion of previously missing parts. This paper presents algorithms that identify regions missing in a certain model but present in homologous structures in the Protein Data Bank (PDB), and 'graft' these regions of interest. These new regions are refined and validated in a fully automated procedure. Including these developments in the
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