dorsal/arxiv
View SchemaEvolutionary conservation of the folding nucleus
| Authors | Leonid Mirny, Eugene Shakhnovich |
|---|---|
| Categories | |
| ArXiv ID | physics/0012003 |
| URL | https://arxiv.org/abs/physics/0012003 |
Abstract
In this Communication we present statistical analysis of conservation profiles in families of homologous sequences for nine proteins whose folding nucleus was determined by protein engineering methods. We show that in all but one protein (AcP) folding nucleus residues are significantly more conserved than the rest of the protein. Two aspects of our study are especially important: 1) grouping of amino acids into classes according to their physical-chemical properties and 2) proper normalization of amino acid probabilities that reflects the fact that evolutionary pressure to conserve some amino acid types may itself affect concentration of various amino acid types in protein families. Neglect of any of those two factors may make physical and biological ``signals'' from conservation profiles disappear.
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"abstract": "In this Communication we present statistical analysis of conservation\nprofiles in families of homologous sequences for nine proteins whose folding\nnucleus was determined by protein engineering methods. We show that in all but\none protein (AcP) folding nucleus residues are significantly more conserved\nthan the rest of the protein. Two aspects of our study are especially\nimportant: 1) grouping of amino acids into classes according to their\nphysical-chemical properties and 2) proper normalization of amino acid\nprobabilities that reflects the fact that evolutionary pressure to conserve\nsome amino acid types may itself affect concentration of various amino acid\ntypes in protein families. Neglect of any of those two factors may make\nphysical and biological ``signals\u0027\u0027 from conservation profiles disappear.",
"arxiv_id": "physics/0012003",
"authors": [
"Leonid Mirny",
"Eugene Shakhnovich"
],
"categories": [
"physics.bio-ph",
"cond-mat.stat-mech",
"physics.chem-ph",
"q-bio"
],
"title": "Evolutionary conservation of the folding nucleus",
"url": "https://arxiv.org/abs/physics/0012003"
},
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