1jva
From Proteopedia
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'''CRYSTAL STRUCTURE OF THE VMA1-DERIVED ENDONUCLEASE BEARING THE N AND C EXTEIN PROPEPTIDES''' | '''CRYSTAL STRUCTURE OF THE VMA1-DERIVED ENDONUCLEASE BEARING THE N AND C EXTEIN PROPEPTIDES''' | ||
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==Reference== | ==Reference== | ||
Protein-splicing reaction via a thiazolidine intermediate: crystal structure of the VMA1-derived endonuclease bearing the N and C-terminal propeptides., Mizutani R, Nogami S, Kawasaki M, Ohya Y, Anraku Y, Satow Y, J Mol Biol. 2002 Mar 1;316(4):919-29. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/11884132 11884132] | Protein-splicing reaction via a thiazolidine intermediate: crystal structure of the VMA1-derived endonuclease bearing the N and C-terminal propeptides., Mizutani R, Nogami S, Kawasaki M, Ohya Y, Anraku Y, Satow Y, J Mol Biol. 2002 Mar 1;316(4):919-29. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/11884132 11884132] | ||
| - | [[Category: H(+)-transporting two-sector ATPase]] | ||
[[Category: Saccharomyces cerevisiae]] | [[Category: Saccharomyces cerevisiae]] | ||
[[Category: Single protein]] | [[Category: Single protein]] | ||
[[Category: Mizutani, R.]] | [[Category: Mizutani, R.]] | ||
[[Category: Satow, Y.]] | [[Category: Satow, Y.]] | ||
| - | [[Category: | + | [[Category: Intein]] |
| - | [[Category: | + | [[Category: Protein-splicing]] |
| - | [[Category: | + | [[Category: Thiazolidine intermediate]] |
| - | [[Category: | + | [[Category: Vde]] |
| - | [[Category: | + | [[Category: Vma1-derived endonuclease]] |
| - | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May 2 21:58:12 2008'' | |
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | + | |
Revision as of 18:58, 2 May 2008
CRYSTAL STRUCTURE OF THE VMA1-DERIVED ENDONUCLEASE BEARING THE N AND C EXTEIN PROPEPTIDES
Overview
Protein splicing excises an internal intein segment from a protein precursor precisely, and concomitantly ligates flanking N and C-extein polypeptides at the respective sides of the precursor. Here, a series of precursor recombinants bearing 11 N-extein and ten C-extein residues is prepared for the intein of the Saccharomyces cerevisiae VMA1-derived homing endonuclease referred to as VDE and as PI-SceI. The recombinant with replacements of C284S, H362N, N737S, and C738S is chosen as a spliceable precursor model and is then subjected to a 2.1A resolution crystallographic analysis. The crystal structure shows that the introduced extein polypeptides are located in the vicinity of the splicing site, and that each of their peptide bonds is in the trans conformation. The S284 O(gamma) atom located at a distance of 3.1A from the G283 C atom in the N-terminal junction suggests that a nucleophilic attack of the C284 S(gamma) atom on the G283 C atom forms a tetrahedral intermediate containing a five-membered thiazolidine ring. The tetrahedral intermediate is supposedly resolved into a thioester acyl group upon the cleavage of the linkage between the G283 C and C284 N atoms, and this thioester acyl formation completes the initial steps of Nright arrowS acyl shift at the junction between the N-extein and intein. The S738 O(gamma) atom in the C-terminal junction is placed in close proximity to the S284 O(gamma) atom at a distance of 3.6A, and is well suited for another nucleophilic attack on the resultant thioester acyl group that is then subjected to the transesterification in the next step. The reaction steps proposed for the acyl shift are driven entirely by protonation and deprotonation, in which proton ingress and egress is balanced within the splicing site.
About this Structure
1JVA is a Single protein structure of sequence from Saccharomyces cerevisiae. Full crystallographic information is available from OCA.
Reference
Protein-splicing reaction via a thiazolidine intermediate: crystal structure of the VMA1-derived endonuclease bearing the N and C-terminal propeptides., Mizutani R, Nogami S, Kawasaki M, Ohya Y, Anraku Y, Satow Y, J Mol Biol. 2002 Mar 1;316(4):919-29. PMID:11884132 Page seeded by OCA on Fri May 2 21:58:12 2008
