title: SNP2Structure: A Public and Versatile Resource for Mapping and Three-Dimensional Modeling of Missense SNPs on Human Protein Structures.
abstract: One of the long-standing challenges in biology is to understand how non-synonymous single nucleotide polymorphisms (nsSNPs) change protein structure and further affect their function. While it is impractical to solve all the mutated protein structures experimentally, it is quite feasible to model the mutated structures in silico. Toward this goal, we built a publicly available structure database resource (SNP2Structure, https://apps.icbi.georgetown.edu/snp2structure) focusing on missense mutations, msSNP. Compared with web portals with similar aims, SNP2Structure has the following major advantages. First, our portal offers direct comparison of two related 3D structures. Second, the protein models include all interacting molecules in the original PDB structures, so users are able to determine regions of potential interaction changes when a protein mutation occurs. Third, the mutated structures are available to download locally for further structural and functional analysis. Fourth, we used Jsmol package to display the protein structure that has no system compatibility issue. SNP2Structure provides reliable, high quality mapping of nsSNPs to 3D protein structures enabling researchers to explore the likely functional impact of human disease-causing mutations.
authors.affiliation: Department of Oncology, Lombardi Comprehensive Cancer Center, Georgetown University Medical Center, Washington, DC 20007, USA; Innovation Center for Biomedical Informatics, Georgetown University Medical Center, Washington, DC 20007, USA; Department of Biochemistry and Molecular & Cellular Biology, Georgetown University, Washington, DC 20007, USA.
authors.forename: Difei
authors.initials: D
authors.lastname: Wang
authors.affiliation: Innovation Center for Biomedical Informatics, Georgetown University Medical Center, Washington, DC 20007, USA.
authors.forename: Lei
authors.initials: L
authors.lastname: Song
authors.affiliation: Innovation Center for Biomedical Informatics, Georgetown University Medical Center, Washington, DC 20007, USA.
authors.forename: Varun
authors.initials: V
authors.lastname: Singh
authors.affiliation: Innovation Center for Biomedical Informatics, Georgetown University Medical Center, Washington, DC 20007, USA.
authors.forename: Shruti
authors.initials: S
authors.lastname: Rao
authors.affiliation: Innovation Center for Biomedical Informatics, Georgetown University Medical Center, Washington, DC 20007, USA.
authors.forename: Lin
authors.initials: L
authors.lastname: An
authors.affiliation: Department of Oncology, Lombardi Comprehensive Cancer Center, Georgetown University Medical Center, Washington, DC 20007, USA; Innovation Center for Biomedical Informatics, Georgetown University Medical Center, Washington, DC 20007, USA.
authors.forename: Subha
authors.initials: S
authors.lastname: Madhavan
keywords: Active site mutations; Disease causing SNPs; Molecular modeling; Protein structure; SNP database