» Articles » PMID: 12463636

Improvements in the Analysis of Domain Motions in Proteins from Conformational Change: DynDom Version 1.50

Overview
Date 2002 Dec 5
PMID 12463636
Citations 139
Authors
Affiliations
Soon will be listed here.
Abstract

DynDom is a program that analyses conformational change in proteins for dynamic domains, hinge axes, and hinge-bending regions. Here, a number of improvements and additions are reported which have been implemented in the new version 1.50. The most significant improvement is in the determination of the hinge-bending residues. A new routine also compares quantities relating to the main-chain dihedrals of bending residues with the hinge-bending motion. This version of the program can now be run from the DynDom website at: http://www.sys.uea.ac.uk/dyndom.

Citing Articles

Bacterial polysaccharide lyase family 33: Specificity from an evolutionarily conserved binding tunnel.

Loiodice M, Drula E, McIver Z, Antonyuk S, Basle A, Lima M Proc Natl Acad Sci U S A. 2025; 122(7):e2421623122.

PMID: 39932998 PMC: 11848413. DOI: 10.1073/pnas.2421623122.


A Mitochondria-Targeting SIRT3 Inhibitor with Activity against Diffuse Large B Cell Lymphoma.

Jana S, Shang J, Hong J, Fenwick M, Puri R, Lu X J Med Chem. 2024; 67(17):15428-15437.

PMID: 39191393 PMC: 11403614. DOI: 10.1021/acs.jmedchem.4c01053.


Molecular dynamics simulations reveal differences in the conformational stability of FtsZs derived from Staphylococcus aureus and Bacillus subtilis.

Takasawa T, Matsui T, Watanabe G, Kodera Y Sci Rep. 2024; 14(1):16043.

PMID: 38992051 PMC: 11239868. DOI: 10.1038/s41598-024-66763-x.


SUMOylation controls Hu antigen R posttranscriptional activity in liver cancer.

Lachiondo-Ortega S, Rejano-Gordillo C, Simon J, Lopitz-Otsoa F, C Delgado T, Mazan-Mamczarz K Cell Rep. 2024; 43(3):113924.

PMID: 38507413 PMC: 11025316. DOI: 10.1016/j.celrep.2024.113924.


Structure of human phagocyte NADPH oxidase in the activated state.

Liu X, Shi Y, Liu R, Song K, Chen L Nature. 2024; 627(8002):189-195.

PMID: 38355798 DOI: 10.1038/s41586-024-07056-1.