2qnf: Difference between revisions
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[[Image:2qnf.jpg|left|200px]] | [[Image:2qnf.jpg|left|200px]] | ||
'''Crystal structure of T4 Endonuclease VII H43N mutant in complex with heteroduplex DNA containing base mismatches''' | {{Structure | ||
|PDB= 2qnf |SIZE=350|CAPTION= <scene name='initialview01'>2qnf</scene>, resolution 3.00Å | |||
|SITE= <scene name='pdbsite=AC1:Zn+Binding+Site+For+Residue+B+158'>AC1</scene> and <scene name='pdbsite=AC2:Zn+Binding+Site+For+Residue+A+158'>AC2</scene> | |||
|LIGAND= <scene name='pdbligand=ZN:ZINC ION'>ZN</scene> | |||
|ACTIVITY= [http://en.wikipedia.org/wiki/Crossover_junction_endodeoxyribonuclease Crossover junction endodeoxyribonuclease], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.22.4 3.1.22.4] | |||
|GENE= 49 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10708 Pseudomonas phage D3112]) | |||
}} | |||
'''Crystal structure of T4 Endonuclease VII H43N mutant in complex with heteroduplex DNA containing base mismatches''' | |||
==Overview== | ==Overview== | ||
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==About this Structure== | ==About this Structure== | ||
2QNF is a [ | 2QNF is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Pseudomonas_phage_d3112 Pseudomonas phage d3112]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QNF OCA]. | ||
==Reference== | ==Reference== | ||
Crystal structure of T4 endonuclease VII resolving a Holliday junction., Biertumpfel C, Yang W, Suck D, Nature. 2007 Oct 4;449(7162):616-20. Epub 2007 Sep 16. PMID:[http:// | Crystal structure of T4 endonuclease VII resolving a Holliday junction., Biertumpfel C, Yang W, Suck D, Nature. 2007 Oct 4;449(7162):616-20. Epub 2007 Sep 16. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/17873859 17873859] | ||
[[Category: Crossover junction endodeoxyribonuclease]] | [[Category: Crossover junction endodeoxyribonuclease]] | ||
[[Category: Pseudomonas phage d3112]] | [[Category: Pseudomonas phage d3112]] | ||
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[[Category: zinc]] | [[Category: zinc]] | ||
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 18:27:32 2008'' | ||
Revision as of 19:27, 20 March 2008
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| , resolution 3.00Å | |||||||
|---|---|---|---|---|---|---|---|
| Sites: | and | ||||||
| Ligands: | |||||||
| Gene: | 49 (Pseudomonas phage D3112) | ||||||
| Activity: | Crossover junction endodeoxyribonuclease, with EC number 3.1.22.4 | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
Crystal structure of T4 Endonuclease VII H43N mutant in complex with heteroduplex DNA containing base mismatches
OverviewOverview
Holliday proposed a four-way DNA junction as an intermediate in homologous recombination, and such Holliday junctions have since been identified as a central component in DNA recombination and repair. Phage T4 endonuclease VII (endo VII) was the first enzyme shown to resolve Holliday junctions into duplex DNAs by introducing symmetrical nicks in equivalent strands. Several Holliday junction resolvases have since been characterized, but an atomic structure of a resolvase complex with a Holliday junction remained elusive. Here we report the crystal structure of an inactive T4 endo VII(N62D) complexed with an immobile four-way junction with alternating arm lengths of 10 and 14 base pairs. The junction is a hybrid of the conventional square-planar and stacked-X conformation. Endo VII protrudes into the junction point from the minor groove side, opening it to a 14 A x 32 A parallelogram. This interaction interrupts the coaxial stacking, yet every base pair surrounding the junction remains intact. Additional interactions involve the positively charged protein and DNA phosphate backbones. Each scissile phosphate that is two base pairs from the crossover interacts with a Mg2+ ion in the active site. The similar overall shape and surface charge potential of the Holliday junction resolvases endo VII, RuvC, Ydc2, Hjc and RecU, despite having different folds, active site composition and DNA sequence preference, suggest a conserved binding mode for Holliday junctions.
About this StructureAbout this Structure
2QNF is a Single protein structure of sequence from Pseudomonas phage d3112. Full crystallographic information is available from OCA.
ReferenceReference
Crystal structure of T4 endonuclease VII resolving a Holliday junction., Biertumpfel C, Yang W, Suck D, Nature. 2007 Oct 4;449(7162):616-20. Epub 2007 Sep 16. PMID:17873859
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