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1ak0

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{{STRUCTURE_1ak0| PDB=1ak0 | SCENE= }}
{{STRUCTURE_1ak0| PDB=1ak0 | SCENE= }}
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'''P1 NUCLEASE IN COMPLEX WITH A SUBSTRATE ANALOG'''
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===P1 NUCLEASE IN COMPLEX WITH A SUBSTRATE ANALOG===
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==Overview==
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The reaction mechanism of nuclease P1 from Penicillium citrinum has been investigated using single-stranded dithiophosphorylated di-, tetra-, and hexanucleotides as substrate analogs. The complexes crystallize in tetragonal and orthorhombic space groups and have been solved by molecular replacement. The high resolution structures give a clear picture of base recognition by P1 nuclease at its two nucleotide-binding sites, especially the 1.8 A structure of a P1-tetranucleotide complex which can be considered a P1-product complex. The observed binding modes are in agreement with a catalytic mechanism where the two closely spaced zinc ions activate the attacking water while the third, more exposed zinc ion stabilizes the leaving 03' oxyanion. Stacking as well as hydrogen bonding interactions with the base 5' to the cleaved phosphodiester bond are important elements of substrate binding and recognition. Modelling of a productive P1-substrate complex based on the solved structures suggests steric hindrance as the likely reason for the resistance of Rp-phosphorothioates and phosphorodithioates. Differences with the highly homologous nuclease S1 from Aspergillus oryzae are discussed.
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(as it appears on PubMed at http://www.pubmed.gov), where 9726413 is the PubMed ID number.
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{{ABSTRACT_PUBMED_9726413}}
==About this Structure==
==About this Structure==
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[[Category: Reaction mechanism]]
[[Category: Reaction mechanism]]
[[Category: Thiophosphorylated oligonucleotide]]
[[Category: Thiophosphorylated oligonucleotide]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May 2 10:22:10 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jun 30 17:00:49 2008''

Revision as of 14:00, 30 June 2008

Image:1ak0.png

Template:STRUCTURE 1ak0

P1 NUCLEASE IN COMPLEX WITH A SUBSTRATE ANALOG

Template:ABSTRACT PUBMED 9726413

About this Structure

1AK0 is a Single protein structure of sequence from Penicillium citrinum. Full crystallographic information is available from OCA.

Reference

Recognition of single-stranded DNA by nuclease P1: high resolution crystal structures of complexes with substrate analogs., Romier C, Dominguez R, Lahm A, Dahl O, Suck D, Proteins. 1998 Sep 1;32(4):414-24. PMID:9726413

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