1vro
From Proteopedia
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| - | [[Image:1vro.gif|left|200px]] | + | [[Image:1vro.gif|left|200px]] |
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| - | '''Selenium-Assisted Nucleic Acid Crystallography: Use of Phosphoroselenoates for MAD Phasing of a DNA Structure''' | + | {{Structure |
| + | |PDB= 1vro |SIZE=350|CAPTION= <scene name='initialview01'>1vro</scene>, resolution 1.10Å | ||
| + | |SITE= | ||
| + | |LIGAND= <scene name='pdbligand=SPM:SPERMINE'>SPM</scene> and <scene name='pdbligand=MG:MAGNESIUM ION'>MG</scene> | ||
| + | |ACTIVITY= | ||
| + | |GENE= | ||
| + | }} | ||
| + | |||
| + | '''Selenium-Assisted Nucleic Acid Crystallography: Use of Phosphoroselenoates for MAD Phasing of a DNA Structure''' | ||
| + | |||
==Overview== | ==Overview== | ||
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==About this Structure== | ==About this Structure== | ||
| - | 1VRO is a [ | + | 1VRO is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/ ]. This structure supersedes the now removed PDB entry 1N6S. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1VRO OCA]. |
==Reference== | ==Reference== | ||
| - | Selenium-assisted nucleic acid crystallography: use of phosphoroselenoates for MAD phasing of a DNA structure., Wilds CJ, Pattanayek R, Pan C, Wawrzak Z, Egli M, J Am Chem Soc. 2002 Dec 18;124(50):14910-6. PMID:[http:// | + | Selenium-assisted nucleic acid crystallography: use of phosphoroselenoates for MAD phasing of a DNA structure., Wilds CJ, Pattanayek R, Pan C, Wawrzak Z, Egli M, J Am Chem Soc. 2002 Dec 18;124(50):14910-6. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/12475332 12475332] |
[[Category: Protein complex]] | [[Category: Protein complex]] | ||
[[Category: Egli, M.]] | [[Category: Egli, M.]] | ||
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[[Category: MG]] | [[Category: MG]] | ||
[[Category: SPM]] | [[Category: SPM]] | ||
| - | [[Category: covalent modification of | + | [[Category: covalent modification of oligonucleotide]] |
[[Category: left-handed z-dna]] | [[Category: left-handed z-dna]] | ||
[[Category: multiwavelength anomalous dispersion (mad)]] | [[Category: multiwavelength anomalous dispersion (mad)]] | ||
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[[Category: synchrotron]] | [[Category: synchrotron]] | ||
| - | ''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 14:48:49 2008'' |
Revision as of 12:48, 20 March 2008
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| , resolution 1.10Å | |||||||
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| Coordinates: | save as pdb, mmCIF, xml | ||||||
Selenium-Assisted Nucleic Acid Crystallography: Use of Phosphoroselenoates for MAD Phasing of a DNA Structure
Overview
The combination of synchrotron radiation and a variety of atoms or ions (either covalently attached to the biomolecule prior to crystallization or soaked into crystals) that serve as anomalous scatterers constitutes a powerful tool in the X-ray crystallographer's repertoire of structure determination techniques. Phosphoroselenoates in which one of the nonbridging phosphate oxygens in the backbone is replaced by selenium offer a simplified means for introducing an anomalous scatterer into oligonucleotides by conventional solid-phase synthesis. Unlike other methods that are used to derivatize DNA or RNA by covalent attachment of a heavy atom (i.e., bromine at the C5 position of pyrimidines), tedious synthesis of specialized nucleosides is not required. Introduction of selenium is readily accomplished in solid-phase oligonucleotide synthesis by replacing the standard oxidation agent with a solution of potassium selenocyanide. This results in a diastereomeric mixture of phosphoroselenoates that can be separated by strong anion-exchange HPLC. As a test case, all 10 DNA hexamers of the sequence CGCGCG containing a single phosphoroselenoate linkage (PSe) were prepared. Crystals were grown for a subset of them, and the structure of [d(C(PSe)GCGCG)](2) was determined by the multiwavelength anomalous dispersion technique and refined to 1.1 A resolution.
About this Structure
1VRO is a Protein complex structure of sequences from [1]. This structure supersedes the now removed PDB entry 1N6S. Full crystallographic information is available from OCA.
Reference
Selenium-assisted nucleic acid crystallography: use of phosphoroselenoates for MAD phasing of a DNA structure., Wilds CJ, Pattanayek R, Pan C, Wawrzak Z, Egli M, J Am Chem Soc. 2002 Dec 18;124(50):14910-6. PMID:12475332
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