Abstract
Abstract We describe a suite of programs, PROMOTIF, that analyzes a protein coordinate file and provides details about the structural motifs in the protein. The program currently analyzes the following structural features: secondary structure; β‐ and γ ‐turns; helical geometry and interactions; β ‐strands and β ‐sheet topology; β ‐bulges; β ‐hairpins; β‐α‐β units and Ψ ‐loops; disulphide bridges; and main‐chain hydrogen bonding patterns. PROMOTIF creates postscript files showing the examples of each type of motif in the protein, and a summary page. The program can also be used to compare motifs in a group of related structures, such as an ensemble of NMR structures.
Keywords
Structural motifBETA (programming language)Motif (music)Structural bioinformaticsProtein secondary structureProtein structureSuiteCrystallographyComputer scienceComputational biologyBeta sheetBioinformaticsChemistryBiologyPhysicsProgramming languageBiochemistryGeography
Affiliated Institutions
Related Publications
Gibbs motif sampling: Detection of bacterial outer membrane protein repeats
Abstract The detection and alignment of locally conserved regions (motifs) in multiple sequences can provide insight into protein structure, function, and evolution. A new Gibbs...
ESPript/ENDscript: extracting and rendering sequence and 3D information from atomic structures of proteins
The fortran program ESPript was created in 1993, to display on a PostScript figure multiple sequence alignments adorned with secondary structure elements. A web server was made ...
The structure of interfaces between subunits of dimeric and tetrameric proteins
The structures of the interfaces of nine dimeric and nine tetrameric proteins have been analyzed and have been seen to follow general principles. These interfaces are combinatio...
The Thermodynamics of DNA Structural Motifs
DNA secondary structure plays an important role in biology, genotyping diagnostics, a variety of molecular biology techniques, in vitro-selected DNA catalysts, nanotechnology, a...
<i>Mercury CSD 2.0</i>– new features for the visualization and investigation of crystal structures
The program Mercury , developed by the Cambridge Crystallographic Data Centre, is designed primarily as a crystal structure visualization tool. A new module of functionality has...
Publication Info
- Year
- 1996
- Type
- article
- Volume
- 5
- Issue
- 2
- Pages
- 212-220
- Citations
- 1039
- Access
- Closed
External Links
Social Impact
Altmetric
PlumX Metrics
Social media, news, blog, policy document mentions
Citation Metrics
1039
OpenAlex
Cite This
E. Gail Hutchinson,
Janet M. Thornton
(1996).
PROMOTIF—A program to identify and analyze structural motifs in proteins.
Protein Science
, 5
(2)
, 212-220.
https://doi.org/10.1002/pro.5560050204
Identifiers
- DOI
- 10.1002/pro.5560050204