SURFNET: A program for visualizing molecular surfaces, cavities, and intermolecular interactions

Journal of Molecular Graphics

Volumn 13, Issue 5, 1995, Pages 323-330

  Laskowski, Roman A ^a  

^a UNIVERSITY COLLEGE LONDON   (United Kingdom)

Author keywords

binding sites; cavities; molecular interactions; Molecular surfaces

Indexed keywords

ARTICLE; CHEMICAL STRUCTURE; COMPUTER PROGRAM; DATA ANALYSIS; DENSITY; MOLECULAR MODEL; PRIORITY JOURNAL; PROTEIN STRUCTURE;

AMINO ACID SEQUENCE; ARGININE; BINDING SITES; CHYMOTRYPSIN; COMPUTER GRAPHICS; MODELS, MOLECULAR; MOLECULAR SEQUENCE DATA; PROTEIN CONFORMATION; PROTEINS; SUPPORT, NON-U.S. GOV'T; SURFACE PROPERTIES; THERMOLYSIN;

EID: 0028881975     PISSN: 02637855     EISSN: None     Source Type: Journal    
DOI: 10.1016/0263-7855(95)00073-9     Document Type: Article

References (45)

1. Protein-nucleic acid interactions Editorial overview
2. Peptide-protein interactions: An overview
3. The structure of protein-protein recognition sites
4. Protein-protein interactions: A review of protein dimer structures
5. Structure-based molecular design
6. Structure-based drug design
7. Dominant forces in protein folding
8. The interpretation of protein structures: Total volume, group volume distributions and packing density
9. Areas, volumes, packing, and protein structure
10. Intramolecular cavities in globular-proteins
11. Analytical molecular surface calculation
12. Improved methods for building protein models in electron density maps and the location of errors in these models
13. SMART: A solvent-accessible triangulated surface generator for molecular graphics and boundary element applications
14. The molecular surface package
15. GRASP: Graphical representation and analysis of surface-properties
16. Cavity search: An algorithm for the isolation and display of cavity-like binding regions
17. Detection, delineation, measurement and display of cavities in macromolecular structures
18. The pore dimensions of gramicidin A
19. A very fast program for visualizing protein surfaces, channels and cavities
20. WHAT IF: A molecular modeling and drug design program
21. Finding and filling protein cavities using cellular logic operations
22. POCKET: A computer graphics method for identifying and displaying protein cavities and their surrounding amino acids
23. Internal cavities and buried waters in globular proteins
24. Detection of cavities in a set of interpenetrating spheres
25. Buried waters and internal cavities in monomeric proteins
26. A graphics model building and refinement system for macromolecules
27. A fast algorithm for rendering space-filling molecular pictures
28. Raster3D version 2.0. A program for photorealistic molecular graphics
29. The Protein Data Bank: A computer-based archival file for macromolecular structures
30. 3-hybridized oxygen atoms and its relevance to ligand-macromolecule interactions
31. A geometric approach to macromolecule-ligand interactions
32. The CCP suite: Programs for protein crystallography
33. X-Ray-crystallographic studies of complexes of pepstatin A and a statine-containing human renin inhibitor with endothiapepsin
34. X-Ray analyses of aspartic proteinases. 5. Structures and refinement at 2.0Å resolution of the aspartic proteinase from Mucor pusillus
35. Slow- and fast-binding inhibitors of thermolysin display different modes of binding Crystallographic analysis of extended phosphonamidate transition-state analogues
36. Binding of N-carboxymethyl dipeptide inhibitors to thermolysin determined by X-ray crystallography: A novel class of transition-state analogues for zinc peptidases
37. Crystallographic structural analysis of phosphoramidates as inhibitors and transition-state analogs of thermolysin
38. Hydrogen bond stereochemistry in protein structure and function
39. Distribution of solvent molecules around apolar side-chains in protein crystals
40. Crystal and molecular-structures of the complex of α-chymotrypsin with its inhibitor turkey ovomucoid third domain at 1.8Å resolution
41. Solvent interactions with π ring systems in proteins
42. Three-dimensional structure of acylphosphatase. Refinement and structure-analysis