Submitted on April 1, 2002
Revised on May 8, 2002
Accepted on May 21, 2002
A multi-domain TIGR/Olfactomedin protein family with conserved structural similarity in the N-terminal region and conserved motifs in the C-terminal region
Michelle L. Green and Teri E. Klein
Stanford Medical Informatics, Stanford University, Stanford, CA 94305-5479
Corresponding Author: mgreen{at}smi.stanford.edu
Based on the similarity between the TIGR (also known as myocilin) and olfactomedin protein families identified throughout the length of the TIGR protein, we have identified more distantly related proteins in order to determine the elements essential to the function/structure of the TIGR and olfactomedin proteins. Using a sequence walk method and the Shotgun program, we have identified a family including 31 olfactomedin-domain-containing sequences. Multiple sequence alignments and secondary structure analyses were used to identify conserved sequence elements. Pairwise identity in the olfactomedin domain ranges from 8% to 64%, with an average pairwise identity of 24%. The N-terminal regions of the proteins fall into two subgroups - one including the TIGR and olfactomedin families and another group of apparently unrelated domains. The TIGR and olfactomedin sequences display conserved motifs including a residual leucine zipper region, and maintain a similar secondary structure throughout the N-terminal region. The correlation between conserved elements and disease-associated mutations and apparent polymorphisms in human TIGR was also examined to evaluate the apparent importance of conserved residues to the function/structure of TIGR. Several residues have been identified as essential to the function and/or structure of the human TIGR protein based on their degree of conservation across the family and their implication in the pathogenesis of primary open-angle glaucoma. Additionally, we have identified a group of chitinase sequences containing several of the highly conserved motifs present in the C-terminal region of the olfactomedin-domain-containing sequences.