Knowledge-Based Conformer Generation Using the Cambridge Structural Database.

07:00 EST 9th February 2018 | BioPortfolio

Summary of "Knowledge-Based Conformer Generation Using the Cambridge Structural Database."

Fast generation of plausible molecular conformations is central to molecular modelling. This paper presents an approach to conformer generation that makes extensive use of the information available in the Cambridge Structural Database. By using geometric distributions derived from the Cambridge Structural Database, it is possible to create biologically relevant conformations in the majority of cases analysed. The paper compares the performance of the approach with previously published evaluations, and presents some cases where the method fails. The method appears to show significantly improved performance in reproduction of the conformations of structures observed in the Cambridge Structural Database and the Protein Data Bank as compared to other published methods of a similar speed.


Journal Details

This article was published in the following journal.

Name: Journal of chemical information and modeling
ISSN: 1549-960X


DeepDyve research library

PubMed Articles [27876 Associated PubMed Articles listed on BioPortfolio]

Binary polymorphic cocrystals: an update on the available literature in the Cambridge Structural Database, including a new polymorph of the pharmaceutical 1:1 cocrystal theophylline-3,4-dihydroxybenzoic acid.

An analysis and classification of the 2925 neutral binary organic cocrystals in the Cambridge Structural Database is reported, focusing specifically on those both showing polymorphism and containing a...

Competitor analysis of functional group H-bond donor and acceptor properties using the Cambridge Structural Database.

Intermolecular interactions found in the Cambridge Structural Database (CSD) are analysed as the outcomes of competitions between the different functional groups that are present in each structure: th...

Leveraging prior knowledge for protein-protein interaction extraction with memory network.

Automatically extracting protein-protein interactions (PPIs) from biomedical literature provides additional support for precision medicine efforts. This paper proposes a novel memory network-based mod...

Sequence-based searching of custom proteome and transcriptome databases.

A long-term goal in renal physiology is to understand the mechanisms involved in collecting duct function and regulation at a cellular and molecular level. The first step in modeling of these mechanis...

Electrocatalytic CO Reduction with Cis and Trans Conformers of a Rigid Dinuclear Rhenium Complex: Comparing the Monometallic and Cooperative Bimetallic Pathways.

Anthracene-bridged dinuclear rhenium complexes are reported for electrocatalytic carbon dioxide (CO) reduction to carbon monoxide (CO). Related by hindered rotation of each rhenium active site to eith...

Clinical Trials [6360 Associated Clinical Trials listed on BioPortfolio]

Surgery and Transcatheter Intervention for Structural Heart Diseases

This project aimed to optimize the therapeutic strategy for structural heart disease by choosing optimal treatment, such as,surgical treatment,interventional and surgery combined with inte...

A Randomized, Double-Blind, Controlled Study of the Safety and Performance of the NIRx™ Paclitaxel-Coated Conformer Coronary Stent

The clinical investigation is an international, prospective, double-blind, randomized safety and efficacy study. The purpose of this study is to evaluate the safety and performance of the ...

From Structural to Functional Characteristics of the Lumbar Multifidus in Low Back Pain

To delineate the underlying mechanisms that contribute to chronic low back pain, by extending our knowledge on structural characteristics of the lumbar multifidus muscle using ultrasound m...

International AGD Database; Determinants of AGD and Establishment of Normative Data

Aim: To collate data on Anogenital Distance (AGD) from several population studies to build an international database for Anogenital Distance (AGD) Primary objective: To build a database p...

Next Generation pErsonalized tX(Therapy) With mulTi-omics and Preclinical Model]

The next generation of personalized medical treatment according to the type of personal genetic information are evolving rapidly. The genome analysis needs systematic infra and database ba...

Medical and Biotech [MESH] Definitions

The study of religion and religious belief, or a particular system or school of religious beliefs and teachings (from online Cambridge Dictionary of American English, 2000 and WordNet: An Electronic Lexical Database, 1997)

Computer programs based on knowledge developed from consultation with experts on a problem, and the processing and/or formalizing of this knowledge using these programs in such a manner that the problems may be solved.

Systems of medicine based on cultural beliefs and practices handed down from generation to generation. The concept includes mystical and magical rituals (SPIRITUAL THERAPIES); PHYTOTHERAPY; and other treatments which may not be explained by modern medicine.

Work consisting of a structured file of information or a set of logically related data stored and retrieved using computer-based means.

An approach, process, or methodology which emphasizes credible evidence and the best available scientific knowledge, judiciously integrated to achieve the best possible outcomes in structural design. For example, the design of a new OUTPATIENT CLINIC might incorporate a review of published research on outpatient clinic design, decisions on similar past projects, along with interviews with staff and consumers.

Quick Search


DeepDyve research library

Relevant Topic

Within medicine, nutrition (the study of food and the effect of its components on the body) has many different roles. Appropriate nutrition can help prevent certain diseases, or treat others. In critically ill patients, artificial feeding by tubes need t...

Searches Linking to this Article