Hydrophobic patches on protein subunit interfaces: Characteristics and prediction

Proteins: Structure, Function and Genetics

Volumn 28, Issue 3, 1997, Pages 333-343

  Lijnzaad, Philip ^a   Argos, Patrick ^b  

^a WELLCOME TRUST SANGER INSTITUTE   (United Kingdom)

^b EUROPEAN MOLECULAR BIOLOGY LABORATORY   (Germany)

Author keywords

Molecular recognition; Oligomeric structure; Protein structure; Subunit interface

Indexed keywords

PROTEIN SUBUNIT;

AMINO ACID COMPOSITION; AMINO ACID SEQUENCE; ARTICLE; HYDROPHOBICITY; MOLECULAR DYNAMICS; PRIORITY JOURNAL; PROTEIN CONFORMATION; PROTEIN DETERMINATION; STRUCTURE ANALYSIS;

AMINO ACIDS; MACROMOLECULAR SUBSTANCES; MODELS, CHEMICAL; PEPTIDES; PROTEINS; STRUCTURE-ACTIVITY RELATIONSHIP; WATER;

EID: 0030997363     PISSN: 08873585     EISSN: None     Source Type: Journal    
DOI: 10.1002/(SICI)1097-0134(199707)28:3<333::AID-PROT4>3.0.CO;2-D     Document Type: Article

References (14)

1. Janin, J., Miller, S., Chothia, C. Surface, subunit interfaces and interior of oligomeric proteins. J. Mol. Biol. 204:155-164, 1988.
2. Argos, P. An investigation of domain and subunit interfaces. Protein Eng. 2:101-113, 1988.
3. Korn, A.P., Burnett, R.M. Distribution and complementarity of hydrophobicity in multi-subunit proteins. Proteins 9:37-55, 1991.
4. Jones, S., Thornton, J.M. Protein-protein interactions: A review of protein dimer structures. Prog. Biophys. Mol. Biol. 63:31-65, 1995.
5. Lijnzaad, P., Berendsen, H.J.C., Argos, P. A method for detecting hydrophobic patches on protein surfaces. Proteins 26:192-203, 1996.
6. Bernstein, F.C., Koetzle, T.F., Williams, G.J.B., Meyer, E.F. Jr., Brice, M.D., Rodgers, J.R., Kennard, O., Shimanouchi, T., Tasumi, M. The Protein Data Bank: A computer-based archival file for macromolecular structures. J. Mol. Biol. 112:535-542, 1977.
7. Abola, E.E., Bernstein, F.C., Bryant, S.H., Koetzle, T.F., Weng, J. Protein Data Bank. In "Crystallographic Databases: Information Content, Software Systems, Scientific Applications." Alle, F.H., Bergerhoff, G., Siebers, R. (eds.). Bonn/Cambridge/Chester: Data Commission of the International Union of Crystallography. 1987:107-132.
8. Etzold, T., Argos, P. Transforming a set of biological flat file libraries to a fast access network. Comp. Appl. Biosci. (CABIOS) 9:59-64, 1993.
9. Etzold, T., Argos, P. SRS: An indexing and retrieval tool for flat file data libraries. Comp. Appl. Biosci. (CABIOS) 9:49-57, 1993.
10. Heringa, J., Sommerfeldt, H., Higgins, D., Argos, P. OBSTRUCT: A program to obtain largest cliques from a protein sequence set according to structural resolution and sequence similarity. Comp. Appl. Biosci. (CABIOS) 8:599-600, 1992.
11. Eisenhaber, F., Lijnzaad, P., Argos, P., Sander, C., Scharf, M. The double cubic lattice method: An efficient approach to numerical integration of surface area and volume and to dot surface contouring of molecular assemblies. J. Comp. Chem. 16:273-284, 1995.
12. Lijnzaad, P., Berendsen, H.J.C., Argos, P. Hydrophobic patches on the surfaces of protein structures. Proteins 25:389-397, 1996.
13. Young, L., Jernigan, R.L., Covell, D.G. A role for surface hydrophobicity in protein-protein recognition. Protein Sci. 3:717-729, 1994.
14. Taylor, W.R., Thornton, J.M., Turnell, W.G. An ellipsoidal approximation of protein shape. J. Mol. Graphics 1:30-38, 1983.