LAHMA: structure analysis through local annotation of homology‐matched amino acids. Issue 1 (17th December 2020)

• Record Type: Journal Article
• Authors: van Beusekom, Bart; Damaskos, George; Hekkelman, Maarten L.; Salgado-Polo, Fernando; Hiruma, Yoshitaka; Perrakis, Anastassis; Joosten, Robbie P.
• Is Part Of: Acta crystallographica. Volume 77:Issue 1(2021)
• Page Start: 28
• Page End: 40
• Publication Date: 2020-12-17
• Subjects: protein structure -- homology -- webserver -- structure analysis -- LAHMA; X-ray crystallography -- Periodicals; Crystallography -- Periodicals; Molecular biology -- Periodicals; Molecular structure -- Periodicals; Biomolecules -- Structure -- Periodicals; Cytology -- Periodicals; Biomolecules -- Structure; Crystallography; Cytology; Molecular biology; Molecular structure; X-ray crystallography; Periodicals; 548
• DOI: 10.1107/S2059798320014473
• Languages: English
• ISSNs: 2059-7983

Abstract

Abstract : The LAHMA web server for structural analysis of homologous proteins is presented. Abstract : Comparison of homologous structure models is a key step in analyzing protein structure. With a wealth of homologous structures, comparison becomes a tedious process, and often only a small (user‐biased) selection of data is used. A multitude of structural superposition algorithms are then typically used to visualize the structures together in 3D and to compare them. Here, the Local Annotation of Homology‐Matched Amino acids ( LAHMA ) website (https://lahma.pdb‐redo.eu ) is presented, which compares any structure model with all of its close homologs from the PDB‐REDO databank. LAHMA displays structural features in sequence space, allowing users to uncover differences between homologous structure models that can be analyzed for their relevance to chemistry or biology. LAHMA visualizes numerous structural features, also allowing one‐click comparison of structure‐quality plots (for example the Ramachandran plot) and `in‐browser' structural visualization of 3D models.