A self-consistent knowledge-based approach to protein design

Biophysical Journal

Volumn 80, Issue 1, 2001, Pages 480-490

  Rossi, Andrea ^a,b,c   Micheletti, Cristian ^a,b   Seno, Flavio ^a   Maritan, Amos ^a,b  

^a INFM   (Italy)

^b Abdus Salam International Center   (Italy)

^c SISSA   (Italy)

Author keywords

[No Author keywords available]

Indexed keywords

AMINO ACID; BARNASE; CHYMOTRYPSIN INHIBITOR; PROTEIN;

AMINO ACID SEQUENCE; ARTICLE; CELL ENERGY; PROTEIN ASSEMBLY; PROTEIN CONFORMATION; PROTEIN FOLDING; PROTEIN INTERACTION; PROTEIN STRUCTURE; STATISTICAL ANALYSIS;

EID: 0035139095     PISSN: 00063495     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0006-3495(01)76030-4     Document Type: Article

References (44)

1. Principles that govern the folding of protein chains
2. The structural basis of antiviral drug resistance
3. The protein folding problem
4. The relation between the divergence of sequences and structures in proteins
5. Prediction of protein folding from amino acid sequence over discrete conformation space
6. De novo protein design: Fully automated sequence selection
7. New algorithm for protein design
8. Principles of protein folding: A perspective from simple exact models
9. Extraction of interaction potentials between amino acids from native protein structures
10. Optimization of rates of protein folding: The nucleation condensation mechanism and its implications
11. Molecular dynamics of folding of secondary structures in go-like models of proteins
12. Accuracy of side-chain prediction upon near-native protein backbones generated by ab initio folding methods
13. The structure of the transition state for folding of chymotrypsin inhibitor 2 analyzed by protein engineering methods: Evidence for a nucleation-condensation mechanism for protein folding
14. Protein design by binary patterning of polar and nonpolar amino acids
15. Learning algorithms with optimal stability in neural networks
16. A lattice statistical mechanics model of the conformational and sequence spaces of proteins
17. Contact potential that recognizes the correct folding of globular proteins
18. Role of secondary motifs in fast folding polymers: A dynamical variational principle
19. Optimal shapes of compact strings
20. Protein structures and optimal folding from a geometrical variational principle
21. A comparative study of existing and new design techniques for protein models
22. Design of proteins with hydrophobic and polar amino acids
23. Protein design in a lattice model of hydrophobic and polar amino acids
24. Strategies for protein folding and design
25. Design of proteins with selected thermal properties
26. Designing proteins and peptides
27. Energy functions that discriminate x-ray and near-native folds from well-constructed decoys
28. De novo design, synthesis and characterization of a beta sandwich protein
29. A novel iterative strategy for protein design
30. Database of homology-derived protein structures and the structural meaning of sequence alignment
31. Interaction potentials for protein folding
32. Variational approach to protein design and extraction of interaction potentials
33. Optimal protein design procedure
34. Substructure of barnase and the contribution of different interactions to protein stability
35. Proteins with selected sequences fold into unique native conformation
36. Conserved residues and the mechanism of protein folding
37. A new approach to the design of stable proteins
38. Computational protein design
39. Designing amino acid sequences to fold with good hydrophobic cores
40. Determination of interaction potentials of amino acids from native protein structures: Tests on simple lattice models
41. Pairwise contact potentials are unsuitable for protein folding
42. De novo amyloid proteins from designed combinatorial libraries
43. Statistical theory of combinatorial libraries of folding proteins: Energetic discrimination of a target structure