Cracking the folding code. Why do some proteins adopt partially folded conformations, whereas other don't?
Many, but not all, globular proteins have been shown to have compact intermediate state(s) under equilibrium conditions in vitro, giving rise to the question: why do some proteins adopt partially folded conformations, whereas other do not? Here we show that charge to hydrophobicity ratio of a polypeptide chain may represent a key determinant in this respect, as proteins known to form equilibrium partially folded intermediates are specifically localized within a unique region of charge-hydrophobicity space. Thus, the competence of a protein to form equilibrium intermediate(s) may be determined by the bulk content of hydrophobic and charged amino acid residues rather than by the positioning of amino acids within the sequence.
Uversky
Vladimir N
VN
Institute for Biological Instrumentation, Russian Academy of Sciences, 142290 Pushchino, Moscow Region, Russia. uversky@hydrogen.ucsc.edu
D000595:Amino Acid Sequence / Q000502:physiology; D019295:Computational Biology; D019791:Guanidine / Q000737:chemistry / Q000494:pharmacology; D006863:Hydrogen-Ion Concentration; D011487:Protein Conformation; D011489:Protein Denaturation / Q000187:drug effects / Q000502:physiology; D017510:Protein Folding; D011506:Proteins / Q000737:chemistry* / Q000187:drug effects / Q000378:metabolism*; D013696:Temperature; D014508:Urea / Q000737:chemistry / Q000494:pharmacology
D011506:Proteins; D014508:Urea; D019791:Guanidine