1l6y: Difference between revisions

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Crystal Structure of Porphobilinogen Synthase Complexed with the Inhibitor 4-Oxosebacic Acid

OverviewOverview

Porphobilinogen synthase (PBGS) catalyzes the condensation of two molecules of 5-aminolevulinic acid (ALA), an essential step in tetrapyrrole biosynthesis. 4-Oxosebacic acid (4-OSA) and 4,7-dioxosebacic acid (4,7-DOSA) are bisubstrate reaction intermediate analogs for PBGS. We show that 4-OSA is an active site-directed irreversible inhibitor for Escherichia coli PBGS, whereas human, pea, Pseudomonas aeruginosa, and Bradyrhizobium japonicum PBGS are insensitive to inhibition by 4-OSA. Some variants of human PBGS (engineered to resemble E. coli PBGS) have increased sensitivity to inactivation by 4-OSA, suggesting a structural basis for the specificity. The specificity of 4-OSA as a PBGS inhibitor is significantly narrower than that of 4,7-DOSA. Comparison of the crystal structures for E. coli PBGS inactivated by 4-OSA versus 4,7-DOSA shows significant variation in the half of the inhibitor that mimics the second substrate molecule (A-side ALA). Compensatory changes occur in the structure of the active site lid, which suggests that similar changes normally occur to accommodate numerous hybridization changes that must occur at C3 of A-side ALA during the PBGS-catalyzed reaction. A comparison of these with other PBGS structures identifies highly conserved active site water molecules, which are isolated from bulk solvent and implicated as proton acceptors in the PBGS-catalyzed reaction.

About this StructureAbout this Structure

1L6Y is a Single protein structure of sequence from Escherichia coli with , , and as ligands. Active as Porphobilinogen synthase, with EC number 4.2.1.24 Full crystallographic information is available from OCA.

ReferenceReference

Species-specific inhibition of porphobilinogen synthase by 4-oxosebacic acid., Jaffe EK, Kervinen J, Martins J, Stauffer F, Neier R, Wlodawer A, Zdanov A, J Biol Chem. 2002 May 31;277(22):19792-9. Epub 2002 Mar 21. PMID:11909869

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 caption="1l6y, resolution 1.9&Aring;" />
 '''Crystal Structure of Porphobilinogen Synthase Complexed with the Inhibitor 4-Oxosebacic Acid'''<br />
 ==Overview==
-Porphobilinogen synthase (PBGS) catalyzes the condensation of two, molecules of 5-aminolevulinic acid (ALA), an essential step in, tetrapyrrole biosynthesis. 4-Oxosebacic acid (4-OSA) and 4,7-dioxosebacic, acid (4,7-DOSA) are bisubstrate reaction intermediate analogs for PBGS. We, show that 4-OSA is an active site-directed irreversible inhibitor for, Escherichia coli PBGS, whereas human, pea, Pseudomonas aeruginosa, and, Bradyrhizobium japonicum PBGS are insensitive to inhibition by 4-OSA. Some, variants of human PBGS (engineered to resemble E. coli PBGS) have, increased sensitivity to inactivation by 4-OSA, suggesting a structural, basis for the specificity. The specificity of 4-OSA as a PBGS inhibitor is, significantly narrower than that of 4,7-DOSA. Comparison of the crystal, structures for E. coli PBGS inactivated by 4-OSA versus 4,7-DOSA shows, significant variation in the half of the inhibitor that mimics the second, substrate molecule (A-side ALA). Compensatory changes occur in the, structure of the active site lid, which suggests that similar changes, normally occur to accommodate numerous hybridization changes that must, occur at C3 of A-side ALA during the PBGS-catalyzed reaction. A comparison, of these with other PBGS structures identifies highly conserved active, site water molecules, which are isolated from bulk solvent and implicated, as proton acceptors in the PBGS-catalyzed reaction.
+Porphobilinogen synthase (PBGS) catalyzes the condensation of two molecules of 5-aminolevulinic acid (ALA), an essential step in tetrapyrrole biosynthesis. 4-Oxosebacic acid (4-OSA) and 4,7-dioxosebacic acid (4,7-DOSA) are bisubstrate reaction intermediate analogs for PBGS. We show that 4-OSA is an active site-directed irreversible inhibitor for Escherichia coli PBGS, whereas human, pea, Pseudomonas aeruginosa, and Bradyrhizobium japonicum PBGS are insensitive to inhibition by 4-OSA. Some variants of human PBGS (engineered to resemble E. coli PBGS) have increased sensitivity to inactivation by 4-OSA, suggesting a structural basis for the specificity. The specificity of 4-OSA as a PBGS inhibitor is significantly narrower than that of 4,7-DOSA. Comparison of the crystal structures for E. coli PBGS inactivated by 4-OSA versus 4,7-DOSA shows significant variation in the half of the inhibitor that mimics the second substrate molecule (A-side ALA). Compensatory changes occur in the structure of the active site lid, which suggests that similar changes normally occur to accommodate numerous hybridization changes that must occur at C3 of A-side ALA during the PBGS-catalyzed reaction. A comparison of these with other PBGS structures identifies highly conserved active site water molecules, which are isolated from bulk solvent and implicated as proton acceptors in the PBGS-catalyzed reaction.
 ==About this Structure==
-L6Y is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli] with ZN, MG, 4OX and GOL as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/Porphobilinogen_synthase Porphobilinogen synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.1.24 4.2.1.24] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1L6Y OCA].
+L6Y is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli] with <scene name='pdbligand=ZN:'>ZN</scene>, <scene name='pdbligand=MG:'>MG</scene>, <scene name='pdbligand=4OX:'>4OX</scene> and <scene name='pdbligand=GOL:'>GOL</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/Porphobilinogen_synthase Porphobilinogen synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.1.24 4.2.1.24] Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1L6Y OCA].
 ==Reference==
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 [[Category: Porphobilinogen synthase]]
 [[Category: Single protein]]
-[[Category: Jaffe, E.K.]]
+[[Category: Jaffe, E K.]]
 [[Category: Kervinen, J.]]
 [[Category: Martins, J.]]
@@ Line 28: / Line 28: @@
 [[Category: lyase]]
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