Assessment of ab initio protein structure prediction

Subscribe (Full Service)


	Search: The ACM Digital Library The Guide

	Feedback

Assessment of ab initio protein structure prediction

Full text

Pdf (945 KB)

Source

Annual Conference on Research in Computational Molecular Biology archive
Proceedings of the second annual international conference on Computational molecular biology table of contents

New York, New York, United States

Pages: 163 - 171

Year of Publication: 1998

ISBN:0-89791-976-9

Author

Arthur M. Lesk

University of Cambridge, Clinical School, Cambridge, CB2 2QH, U.K.

Sponsor

SIGACT: ACM Special Interest Group on Algorithms and Computation Theory

Publisher

ACM New York, NY, USA

Bibliometrics

Downloads (6 Weeks): 3, Downloads (12 Months): 19, Citation Count: 0

Additional Information:

references index terms collaborative colleagues peer to peer

Tools and Actions:	Request Permissions Review this Article Save this Article to a Binder Display Formats: BibTeX EndNote ACM Ref

DOI Bookmark:	Use this link to bookmark this Article: http://doi.acm.org/10.1145/279069.279110 What is a DOI?

REFERENCES

Note: OCR errors may be found in this Reference List extracted from the full text article. ACM has opted to expose the complete List rather than only correct and linked references.

	1	Lesk, A.M. "CASP-2: Report on ab initio predictions.'' Proteins: Structure, Function and Genetics, in press.
	2	Lesk, A.M. "Computational Molecular Biology." In: Encyclopedia of Computer Science and Technology, A. Kent and J.G. Williams, (eds.) New York, Marcel Dekker, Inc. Volume 31, pp. 101-165, 1994.
	3	Levine, M., Stuart, D., Williams, J. "A method for systematic comparison of the three-dimensional structares of proteins and some results." Acta c~stallographica Vol. A40, pp. 600-610, 1984.
	4	Karpen, M.E., de Haseth, P.L. Neet, K.E. "Comparing short protein substructures by a method based on backbone torsion angles." Proteins: Structure, Function and Genetics, Vol. 6, pp. 155-167, 1989.
	5	Sippl, M.J. "On the problem of comparing protein structures. Development and applications of a new method for the assessment of structural similarities of polypeptide conformations." J. Mol. Biol., Vol. 156, pp. 359-388, 1982.
	6	Liebman, M. N., Venanzi, C.A., Weinstein, H. "Struc rural analysis of carbo~eptidase A and its complexes with inhlbitors as a basis for mode}l~ng enzyme recognition and specificity." Biopolymers, Vol. 24, pp. 1721-1758, 1985.
	7	Taylor, W., Orengo, C. "Protein st-ru~e alignment.' J. Mol. Biol., Vol. 208, 1-22, 1989.
	8	Alexandrov, N.N., T~bashi, K., GS, N. Common spatial arrangement of backbone fragments in homologous and non-homologous proteins. J. Mol. Biol., Vol. 225, pp. 5-9, 1992.
	9	Vriend, O., Sander, C. Detection of common threedimensional substructures in proteins. Proteins: Structure, Function and Genetics, ~ol. 11, pp. 52- 58, 1991.
	10	Fischer, D., Bachar, O., Nussinov, th, Wolfson H.J. "An efficient automated computer vision based technique for detection of three-dimensional structural motifs in proteins." J. Biomol. Str. Dyn., Vol. 9, pp. 769-789, 1992.
	11	Bac~ar, O., Fischer, D., Nussinov, 1L, Wolfson, H.J. "A computer vision based technique for 3- D sequence independent structural comparison of proteins2 Prof. Eng., ~ol. 6, pp. 279-288, 1993.
	12	Nichols, W.L, Rose, G.D., Ten Eyck, L.F., Zimm, B.H. ~Ri~d domains in proteins: an algorithmic approach to their identification." Proteins: $tructure, Function and Genetics, Vol. 23, pp. 38-48, 1995.
	13	Lesk, A.M. "Three-dimensional pattern matching in protein structure analysis In: Combinatorial Pattern Matching, Z. GaUl & E. Ukkonen, eds. Lecture Notes in Computer Science 937. Springer-Verlag, Berlin. pp. 248-260, 1995.
	14	Holm, L., Sander, C. Protein structure comparison by alignment of distance matrices. J. Mol. Biol., Vol.233, pp 123-138, 1993.
	15	Lesk, A.M. "Extraction of well-fitting substructares: r.m.s, deviation and the difference distance matrix." Folding and Design, Vol. 2, pp. S12-S14., 1997.
	16	Lesk, A.M. "Extraction of geometrica~y sim~lax substructures: Least-squares and Chebyshev fitring, and the difference distance matrix." Proteins: Structure, Function and Genetics, in press.
	17	Gassner, N.C., Baase, W.A., Matthews, B.W. "A test of the "jigsaw puzzle" model for protein folding by multiple methion~ne substitutions within the core of T4 lysozyme." Proc. Nat. Acad. $ci., Vol. 93, pp. 12155-12158, 1996.
	18	Chothia, C., Gerstein, M. "How far can sequences diverge?" Nature, Vol. 385, 579--581, 1997.
	19	Lesk, A.M., Chothia,C. "The response of protein structures to amino acid sequence changes." Phil Trans. Roy. $oc. London, Vol. 317, pp. 345-356, 1986.