1qrp
From Proteopedia
(New page: 200px<br /> <applet load="1qrp" size="450" color="white" frame="true" align="right" spinBox="true" caption="1qrp, resolution 1.96Å" /> '''HUMAN PEPSIN 3A IN ...) |
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| - | [[Image:1qrp.gif|left|200px]]<br /> | + | [[Image:1qrp.gif|left|200px]]<br /><applet load="1qrp" size="350" color="white" frame="true" align="right" spinBox="true" |
| - | <applet load="1qrp" size=" | + | |
caption="1qrp, resolution 1.96Å" /> | caption="1qrp, resolution 1.96Å" /> | ||
'''HUMAN PEPSIN 3A IN COMPLEX WITH A PHOSPHONATE INHIBITOR IVA-VAL-VAL-LEU(P)-(O) PHE-ALA-ALA-OME'''<br /> | '''HUMAN PEPSIN 3A IN COMPLEX WITH A PHOSPHONATE INHIBITOR IVA-VAL-VAL-LEU(P)-(O) PHE-ALA-ALA-OME'''<br /> | ||
==Overview== | ==Overview== | ||
| - | The refined crystal structure of the complex between human pepsin and a | + | The refined crystal structure of the complex between human pepsin and a synthetic phosphonate inhibitor, Iva-Val-Val-Leu(P)-(O)Phe-Ala-Ala-OMe [Iva = isovaleryl, Leu(P) = the phosphinic acid analog of L-leucine, (O)Phe = L-3-phenyllactic acid, OMe = methyl ester], is presented. The structure was refined using diffraction data between 30 and 1.96 A resolution to a final R factor ( summation operator| |F(o)| - |F(c)| | / summation operator|F(o)|, where |F(o)| and |F(c)| are the observed and calculated structure-factor amplitudes, respectively) of 20.0%. The interactions of the inhibitor with the enzyme show the locations of the binding sites on the enzyme from S4 to S3'. Modeling of the inhibitor binding to porcine pepsin shows very similar binding sites, except at S4. Comparison of the complex structure with the structures of related inhibitors bound to penicillopepsin helps to rationalize the observed differences in the binding constants. The convergence of reaction mechanisms and geometries in different families of proteinases is also discussed. |
==About this Structure== | ==About this Structure== | ||
| - | 1QRP is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] with CH3 as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http:// | + | 1QRP is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] with <scene name='pdbligand=CH3:'>CH3</scene> as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1QRP OCA]. |
==Reference== | ==Reference== | ||
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[[Category: Homo sapiens]] | [[Category: Homo sapiens]] | ||
[[Category: Single protein]] | [[Category: Single protein]] | ||
| - | [[Category: Bartlett, P | + | [[Category: Bartlett, P A.]] |
| - | [[Category: Cherney, M | + | [[Category: Cherney, M M.]] |
[[Category: Fujinaga, M.]] | [[Category: Fujinaga, M.]] | ||
| - | [[Category: Hanson, J | + | [[Category: Hanson, J E.]] |
| - | [[Category: James, M | + | [[Category: James, M N.G.]] |
| - | [[Category: Tarasova, N | + | [[Category: Tarasova, N I.]] |
[[Category: CH3]] | [[Category: CH3]] | ||
[[Category: aspartic proteinase]] | [[Category: aspartic proteinase]] | ||
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[[Category: transition state analogue]] | [[Category: transition state analogue]] | ||
| - | ''Page seeded by [http:// | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 14:42:58 2008'' |
Revision as of 12:43, 21 February 2008
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HUMAN PEPSIN 3A IN COMPLEX WITH A PHOSPHONATE INHIBITOR IVA-VAL-VAL-LEU(P)-(O) PHE-ALA-ALA-OME
Overview
The refined crystal structure of the complex between human pepsin and a synthetic phosphonate inhibitor, Iva-Val-Val-Leu(P)-(O)Phe-Ala-Ala-OMe [Iva = isovaleryl, Leu(P) = the phosphinic acid analog of L-leucine, (O)Phe = L-3-phenyllactic acid, OMe = methyl ester], is presented. The structure was refined using diffraction data between 30 and 1.96 A resolution to a final R factor ( summation operator| |F(o)| - |F(c)| | / summation operator|F(o)|, where |F(o)| and |F(c)| are the observed and calculated structure-factor amplitudes, respectively) of 20.0%. The interactions of the inhibitor with the enzyme show the locations of the binding sites on the enzyme from S4 to S3'. Modeling of the inhibitor binding to porcine pepsin shows very similar binding sites, except at S4. Comparison of the complex structure with the structures of related inhibitors bound to penicillopepsin helps to rationalize the observed differences in the binding constants. The convergence of reaction mechanisms and geometries in different families of proteinases is also discussed.
About this Structure
1QRP is a Single protein structure of sequence from Homo sapiens with as ligand. Full crystallographic information is available from OCA.
Reference
Structural study of the complex between human pepsin and a phosphorus-containing peptidic -transition-state analog., Fujinaga M, Cherney MM, Tarasova NI, Bartlett PA, Hanson JE, James MN, Acta Crystallogr D Biol Crystallogr. 2000 Mar;56(Pt 3):272-9. PMID:10713513
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