200l: Difference between revisions

Revision as of 17:20, 21 February 2008

THERMODYNAMIC AND STRUCTURAL COMPENSATION IN "SIZE-SWITCH" CORE-REPACKING VARIANTS OF T4 LYSOZYME

OverviewOverview

Previous analysis of randomly generated multiple mutations within the core of bacteriophage T4 lysozyme suggested that the "large-to-small" substitution Leu121 to Ala (L121A) and the spatially adjacent "small-to-large" substitution Ala129 to Met (A129M) might be mutually compensating. To test this hypothesis, the individual variants L121A and A129M were generated, as well as the double "size-switch" mutant L121A/A129M. To make the interchange symmetrical, the combination of L121A with A129L to give L121A/A129L was also constructed. The single mutations were all destabilizing. Somewhat surprisingly, the small-to-large substitutions, which increase hydrophobic stabilization but can also introduce strain, were less deleterious than the large-to-small replacements. Both Ala129 --> Leu and Ala129 --> Met offset the destabilization of L121A by about 50%. Also, in contrast to typical Leu --> Ala core substitutions, which destabilize by 2 to 5 kcal/mol, Leu121 --> Ala slightly stabilized A129L and A129M. Crystal structure analysis showed that a combination of side-chain and backbone adjustments partially accommodated changes in side-chain volume, but only to a limited degree. For example, the cavity that was created by the Leu121 to Ala replacement actually became larger in L121A/A129L. The results demonstrate that the destabilization associated with a change in volume of one core residue can be specifically compensated by an offsetting volume change in an adjacent residue. It appears, however, that complete compensation is unlikely because it is difficult to reconstitute an equivalent set of interactions. The relatively slow evolution of core relative to surface residues appears, therefore, to be due to two factors. First, a mutation in a single core residue that results in a substantial change in size will normally lead to a significant loss in stability. Such mutations will presumably be selected against. Second, if a change in bulk does occur in a buried residue, it cannot normally be fully compensated by a mutation of an adjacent residue. Thus, the most probable response will tend to be reversion to the parent protein.

About this StructureAbout this Structure

200L is a Single protein structure of sequence from Bacteriophage t4 with and as ligands. Active as Lysozyme, with EC number 3.2.1.17 Full crystallographic information is available from OCA.

ReferenceReference

Thermodynamic and structural compensation in "size-switch" core repacking variants of bacteriophage T4 lysozyme., Baldwin E, Xu J, Hajiseyedjavadi O, Baase WA, Matthews BW, J Mol Biol. 1996 Jun 14;259(3):542-59. PMID:8676387

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-[[Image:200l.jpg|left|200px]]<br /><applet load="200l" size="450" color="white" frame="true" align="right" spinBox="true"
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 caption="200l, resolution 1.95&Aring;" />
 '''THERMODYNAMIC AND STRUCTURAL COMPENSATION IN "SIZE-SWITCH" CORE-REPACKING VARIANTS OF T4 LYSOZYME'''<br />
 ==Overview==
-Previous analysis of randomly generated multiple mutations within the core, of bacteriophage T4 lysozyme suggested that the "large-to-small", substitution Leu121 to Ala (L121A) and the spatially adjacent, "small-to-large" substitution Ala129 to Met (A129M) might be mutually, compensating. To test this hypothesis, the individual variants L121A and, A129M were generated, as well as the double "size-switch" mutant, L121A/A129M. To make the interchange symmetrical, the combination of L121A, with A129L to give L121A/A129L was also constructed. The single mutations, were all destabilizing. Somewhat surprisingly, the small-to-large, substitutions, which increase hydrophobic stabilization but can also, introduce strain, were less deleterious than the large-to-small, replacements. Both Ala129 --&gt; Leu and Ala129 --&gt; Met offset the, destabilization of L121A by about 50%. Also, in contrast to typical Leu, --&gt; Ala core substitutions, which destabilize by 2 to 5 kcal/mol, Leu121, --&gt; Ala slightly stabilized A129L and A129M. Crystal structure analysis, showed that a combination of side-chain and backbone adjustments partially, accommodated changes in side-chain volume, but only to a limited degree., For example, the cavity that was created by the Leu121 to Ala replacement, actually became larger in L121A/A129L. The results demonstrate that the, destabilization associated with a change in volume of one core residue can, be specifically compensated by an offsetting volume change in an adjacent, residue. It appears, however, that complete compensation is unlikely, because it is difficult to reconstitute an equivalent set of interactions., The relatively slow evolution of core relative to surface residues, appears, therefore, to be due to two factors. First, a mutation in a, single core residue that results in a substantial change in size will, normally lead to a significant loss in stability. Such mutations will, presumably be selected against. Second, if a change in bulk does occur in, a buried residue, it cannot normally be fully compensated by a mutation of, an adjacent residue. Thus, the most probable response will tend to be, reversion to the parent protein.
+Previous analysis of randomly generated multiple mutations within the core of bacteriophage T4 lysozyme suggested that the "large-to-small" substitution Leu121 to Ala (L121A) and the spatially adjacent "small-to-large" substitution Ala129 to Met (A129M) might be mutually compensating. To test this hypothesis, the individual variants L121A and A129M were generated, as well as the double "size-switch" mutant L121A/A129M. To make the interchange symmetrical, the combination of L121A with A129L to give L121A/A129L was also constructed. The single mutations were all destabilizing. Somewhat surprisingly, the small-to-large substitutions, which increase hydrophobic stabilization but can also introduce strain, were less deleterious than the large-to-small replacements. Both Ala129 --&gt; Leu and Ala129 --&gt; Met offset the destabilization of L121A by about 50%. Also, in contrast to typical Leu --&gt; Ala core substitutions, which destabilize by 2 to 5 kcal/mol, Leu121 --&gt; Ala slightly stabilized A129L and A129M. Crystal structure analysis showed that a combination of side-chain and backbone adjustments partially accommodated changes in side-chain volume, but only to a limited degree. For example, the cavity that was created by the Leu121 to Ala replacement actually became larger in L121A/A129L. The results demonstrate that the destabilization associated with a change in volume of one core residue can be specifically compensated by an offsetting volume change in an adjacent residue. It appears, however, that complete compensation is unlikely because it is difficult to reconstitute an equivalent set of interactions. The relatively slow evolution of core relative to surface residues appears, therefore, to be due to two factors. First, a mutation in a single core residue that results in a substantial change in size will normally lead to a significant loss in stability. Such mutations will presumably be selected against. Second, if a change in bulk does occur in a buried residue, it cannot normally be fully compensated by a mutation of an adjacent residue. Thus, the most probable response will tend to be reversion to the parent protein.
 ==About this Structure==
-L is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Bacteriophage_t4 Bacteriophage t4] with CL and BME as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/Lysozyme Lysozyme], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.17 3.2.1.17] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=200L OCA].
+L is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Bacteriophage_t4 Bacteriophage t4] with <scene name='pdbligand=CL:'>CL</scene> and <scene name='pdbligand=BME:'>BME</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/Lysozyme Lysozyme], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.17 3.2.1.17] Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=200L OCA].
 ==Reference==
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 [[Category: Baldwin, E.]]
 [[Category: Hajiseyedjavadi, O.]]
-[[Category: Matthews, B.W.]]
+[[Category: Matthews, B W.]]
 [[Category: Xu, J.]]
 [[Category: BME]]
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 [[Category: protein stability]]
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