Protein functional epitopes: Hot spots, dynamics and combinatorial libraries

Current Opinion in Structural Biology

Volumn 11, Issue 3, 2001, Pages 364-369

  Ma, Buyong ^a   Wolfson, Haim J ^b   Nussinov, Ruth ^b,c  

^a NATIONAL CANCER INSTITUTE   (United States)

^b TEL AVIV UNIVERSITY   (Israel)

^c SAIC FREDERICK INC   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

EPITOPE; LIGAND; MUTANT PROTEIN; PROTEIN;

BINDING SITE; COMBINATORIAL LIBRARY; LIGAND BINDING; MOLECULAR EVOLUTION; MOLECULAR INTERACTION; PLASTICITY; PRIORITY JOURNAL; PROTEIN BINDING; PROTEIN CONFORMATION; PROTEIN STRUCTURE; REVIEW;

COMBINATORIAL CHEMISTRY TECHNIQUES; EPITOPES; EVOLUTION, MOLECULAR; PROTEIN CONFORMATION; PROTEINS;

EID: 0035366379     PISSN: 0959440X     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0959-440X(00)00216-5     Document Type: Review

References (38)

1. Examination of shape complementarity in docking of unbound proteins
2. Protein clefts in molecular recognition and function
3. The automatic search for ligand binding sites in proteins of known three-dimensional structure using only geometric criteria
4. Convergent solutions to binding at a protein-protein interface
5. Structure-based discovery and in-parallel optimization of novel competitive inhibitors of thymidylate synthase
6. Folding and binding cascades: Dynamic landscapes and population shifts
7. Molecular recognition in the post-reductionist era
8. Proteins with similar architecture exhibit similar large-scale dynamic behavior
9. Point mutations and sequence variability in proteins: Re-distributions of pre-existing populations
10. Conservation of polar residues as hot spots at protein-protein interfaces
11. RNA recognition by human U1A protein is mediated by a network of local cooperative interactions that create the optimal binding surface
12. Luxury accommodations: The expanding role of structural plasticity in protein-protein interaction
13. Use of a non-rigid region in T4 lysozyme to design an adaptable metal-binding site
14. Flexibility and ligand exchange in a buried cavity mutant of T4 lysozyme studied by multinuclear NMR
15. Residue depth: A novel parameter for the analysis of protein structure and stability
16. Intrinsically unstructured proteins: Reassessing the protein structure-function paradigm
17. Structured disorder and conformation selection
18. Why are 'natively unfolded' proteins unstructured under physiologic conditions?
19. Domain flexibility in retroviral proteases: Structural implications for drug resistant mutations
20. Anatomy of hot spots in protein interfaces
21. A hot spot of binding energy in a hormone-receptor interface
22. ASEdb: A database of alanine mutations and their effects on the free energy of binding in protein interactions
23. Rapid mapping of protein functional epitopes by combinatorial alanine scanning
24. Computational alanine scanning to probe protein-protein interactions: A novel approach to evaluate binding free energies
25. An automated multiplestructure alignment and detection of a common structural motif
26. A dataset of protein-protein interfaces generated with a sequence-order-independent comparison technique
27. On the conservation of protein sequences in evolution
28. Co-evolution of proteins with their interaction partners
29. Compromise and accommodation in ecotin, a dimeric macromolecular inhibitor of serine proteases
30. Engineering the independent folding of subtilisin BPN′ pro-domain: Correlation of pro-domain stability with the rate of subtilisin folding
31. Multiple modes of peptide recognition by the PTB domain of the cell fate determinant Numb
32. Recognition of multiple drugs by a single protein: A trivial solution of an old paradox
33. Alignment of flexible protein structures
34. De novo protein design. II plasticity in sequence space
35. Efficient detection of motifs in biological macromolecules by computer vision techniques
36. Can allosteric regulation be predicted from structure?
37. Binding sites in Escherichia coli dihydrofolate reductase communicate by modulating the conformational ensemble
38. The protein databank: A computer-based archival file for macromolecular structures