Comments on: Department of clarification, Protein misfolding division http://www.iayork.com/MysteryRays/2010/01/16/department-of-clarification-protein-misfolding-division/ Meddling with things mankind is not meant to understand. Also, pictures of my kids Sat, 25 Jun 2011 18:45:54 +0000 hourly 1 http://wordpress.org/?v=3.3 By: Mike Dela Cruz http://www.iayork.com/MysteryRays/2010/01/16/department-of-clarification-protein-misfolding-division/comment-page-1/#comment-217150 Mike Dela Cruz Tue, 21 Jun 2011 09:04:21 +0000 http://www.iayork.com/MysteryRays/?p=1725#comment-217150 Really informative iayork. Clarifying the mechanism of protein folding is essential to improve our understanding of the structure and function of proteins. Thanks ^_^ Really informative iayork. Clarifying the mechanism of protein folding is essential to improve our understanding of the structure and function of proteins. Thanks ^_^

]]> By: Passerby http://www.iayork.com/MysteryRays/2010/01/16/department-of-clarification-protein-misfolding-division/comment-page-1/#comment-41570 Passerby Thu, 25 Feb 2010 04:49:59 +0000 http://www.iayork.com/MysteryRays/?p=1725#comment-41570 I'll put my money on improper protein post-translational modifications, like glycosylation, as common factor in mis-folding. These 'tags' are chaperone interaction sites that orchestrate timing sequence within complex folding domains (think: protein origami energetics). See: Effect of glycosylation on protein folding: A close look at thermodynamic stabilization. PNAS 2008. http://www.pnas.org/content/105/24/8256.abstract I’ll put my money on improper protein post-translational modifications, like glycosylation, as common factor in mis-folding. These ‘tags’ are chaperone interaction sites that orchestrate timing sequence within complex folding domains (think: protein origami energetics).

See: Effect of glycosylation on protein folding: A close look at thermodynamic stabilization.
PNAS 2008. http://www.pnas.org/content/105/24/8256.abstract

]]> By: Science Report » Blog Archive » A flood of DRiPs http://www.iayork.com/MysteryRays/2010/01/16/department-of-clarification-protein-misfolding-division/comment-page-1/#comment-40877 Science Report » Blog Archive » A flood of DRiPs Fri, 22 Jan 2010 21:16:17 +0000 http://www.iayork.com/MysteryRays/?p=1725#comment-40877 [...] the past few weeks not only did I post a short update on the DRiPs hypothesis here, but coincidentally a bunch of papers on DRiPs have also been published. I’ll probably cover [...] [...] the past few weeks not only did I post a short update on the DRiPs hypothesis here, but coincidentally a bunch of papers on DRiPs have also been published. I’ll probably cover [...]

]]> By: iayork http://www.iayork.com/MysteryRays/2010/01/16/department-of-clarification-protein-misfolding-division/comment-page-1/#comment-40604 iayork Mon, 18 Jan 2010 17:40:40 +0000 http://www.iayork.com/MysteryRays/?p=1725#comment-40604 Hi, Eric. As I understand Wilke's theory and observations, you're right. He links expression level to both robustness against mis-incorporation (which he further links to use of optimal codons, since he finds and theorizes that low-abundance tRNAs are more likely to be outcompeted leading to mis-incorporation), and to robustness against misfolding (tolerance of mis-incorporated amino acids). It's a little hard to separate out which of these are theoretical, which are computer modelled, and which are observation, since they seem to blur together. But his papers are well worth a look. Hi, Eric. As I understand Wilke’s theory and observations, you’re right. He links expression level to both robustness against mis-incorporation (which he further links to use of optimal codons, since he finds and theorizes that low-abundance tRNAs are more likely to be outcompeted leading to mis-incorporation), and to robustness against misfolding (tolerance of mis-incorporated amino acids). It’s a little hard to separate out which of these are theoretical, which are computer modelled, and which are observation, since they seem to blur together. But his papers are well worth a look.

]]> By: Eric http://www.iayork.com/MysteryRays/2010/01/16/department-of-clarification-protein-misfolding-division/comment-page-1/#comment-40539 Eric Sun, 17 Jan 2010 21:51:10 +0000 http://www.iayork.com/MysteryRays/?p=1725#comment-40539 Presumably the robustness against misincorporation of amino acids and the actual misincorporation events aren't independent. I would imagine that misincorporation of chemically similar amino acids is more likely than misincorporation of dissimilar amino acids, leading to some chemical robustness against misfolding via misincorporation. This is, of course, on top of the evolution of the triplet code to allow for some chemical degeneracy between sequence-related codons. Presumably the robustness against misincorporation of amino acids and the actual misincorporation events aren’t independent. I would imagine that misincorporation of chemically similar amino acids is more likely than misincorporation of dissimilar amino acids, leading to some chemical robustness against misfolding via misincorporation. This is, of course, on top of the evolution of the triplet code to allow for some chemical degeneracy between sequence-related codons.

]]> By: Amino Acid Pills And Their Significance | Herbal Supplements http://www.iayork.com/MysteryRays/2010/01/16/department-of-clarification-protein-misfolding-division/comment-page-1/#comment-40463 Amino Acid Pills And Their Significance | Herbal Supplements Sat, 16 Jan 2010 11:44:12 +0000 http://www.iayork.com/MysteryRays/?p=1725#comment-40463 [...] Department of clarification, Protein misfolding division | Mystery … [...] [...] Department of clarification, Protein misfolding division | Mystery … [...]

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