Lecture GK-7

Sequence-structure relationships

Aims

• To indicate the relationship between sequence identity and RMSD for pairs of homologous proteins.
• To introduce HSSP-curves.

Objectives

After this lecture you will:

• understand how sequence identity and structure similarity are related;
• understand how structural and functional clues can be inferred from multiple alignments.

Supplementary Material

Some of the lecture slides are available on-line (PDF).

Structure and sequence divergence is discussed in:

• Chothia, C. and Lesk, A.M. (1986) The relation between the divergence of sequence and structure in proteins. EMBO J., 5, 823-826. (PubMed)

HSSP-curves were proposed by:

• Sander, C. and Schneider, R. Database of homology-derived protein structures and the structural meaning of sequence alignment. Proteins, 9, 56-68. (PubMed)

and were revised by:

• Rost, B. (1999) Twilight zone of protein sequence alignments. Protein Eng., 12, 85-94. (PubMed; colour figures and Appendix at Burkhard Rost's web site).