This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.
Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.
1qbp
From Proteopedia
(New page: 200px<br /><applet load="1qbp" size="450" color="white" frame="true" align="right" spinBox="true" caption="1qbp, resolution 2.1Å" /> '''CRYSTAL STRUCTURE OF ...) |
|||
| Line 1: | Line 1: | ||
| - | [[Image:1qbp.gif|left|200px]]<br /><applet load="1qbp" size=" | + | [[Image:1qbp.gif|left|200px]]<br /><applet load="1qbp" size="350" color="white" frame="true" align="right" spinBox="true" |
caption="1qbp, resolution 2.1Å" /> | caption="1qbp, resolution 2.1Å" /> | ||
'''CRYSTAL STRUCTURE OF A BROMINATED RNA HELIX WITH FOUR MISMATCHED BASE PAIRS'''<br /> | '''CRYSTAL STRUCTURE OF A BROMINATED RNA HELIX WITH FOUR MISMATCHED BASE PAIRS'''<br /> | ||
==Overview== | ==Overview== | ||
| - | The X-ray crystal structure of a brominated RNA helix with four mismatched | + | The X-ray crystal structure of a brominated RNA helix with four mismatched base pairs and sequence r(UG(Br)C(Br)CAGUUCGCUGGC)(2) was determined to 2.1 A using the methods of multiwavelength anomalous diffraction (MAD) applied to the bromine K-absorption edge. There are three molecules in the asymmetric unit with unique crystal-packing environments, revealing true conformational variability at high resolution for this sequence. The structure shows that the sequence itself does not define a consistent pattern of solvent molecules, with the exception of the mismatched base pairs, implying that specific RNA-protein interactions would occur only with the nucleotides. There are a number of significant tertiary interactions, some of which are a result of the brominated base pairs and others that are directly mediated by the RNA 2' hydroxyl groups. The mismatched base pairs exhibit a solvent network as well as a stacking pattern with their nearest neighbors that validate previous thermodynamic analysis. |
==About this Structure== | ==About this Structure== | ||
| - | 1QBP is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http:// | + | 1QBP is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1QBP OCA]. |
==Reference== | ==Reference== | ||
Crystal structure of a brominated RNA helix with four mismatched base pairs: An investigation into RNA conformational variability., Anderson AC, O'Neil RH, Filman DJ, Frederick CA, Biochemistry. 1999 Sep 28;38(39):12577-85. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=10504226 10504226] | Crystal structure of a brominated RNA helix with four mismatched base pairs: An investigation into RNA conformational variability., Anderson AC, O'Neil RH, Filman DJ, Frederick CA, Biochemistry. 1999 Sep 28;38(39):12577-85. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=10504226 10504226] | ||
[[Category: Protein complex]] | [[Category: Protein complex]] | ||
| - | [[Category: Anderson, A | + | [[Category: Anderson, A C.]] |
| - | [[Category: Filman, D | + | [[Category: Filman, D J.]] |
| - | [[Category: Frederick, C | + | [[Category: Frederick, C A.]] |
| - | [[Category: Neil, R | + | [[Category: Neil, R H.O.]] |
[[Category: brominated cytosine]] | [[Category: brominated cytosine]] | ||
[[Category: mismatched base pairs]] | [[Category: mismatched base pairs]] | ||
| - | ''Page seeded by [http:// | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 14:37:57 2008'' |
Revision as of 12:37, 21 February 2008
|
CRYSTAL STRUCTURE OF A BROMINATED RNA HELIX WITH FOUR MISMATCHED BASE PAIRS
Overview
The X-ray crystal structure of a brominated RNA helix with four mismatched base pairs and sequence r(UG(Br)C(Br)CAGUUCGCUGGC)(2) was determined to 2.1 A using the methods of multiwavelength anomalous diffraction (MAD) applied to the bromine K-absorption edge. There are three molecules in the asymmetric unit with unique crystal-packing environments, revealing true conformational variability at high resolution for this sequence. The structure shows that the sequence itself does not define a consistent pattern of solvent molecules, with the exception of the mismatched base pairs, implying that specific RNA-protein interactions would occur only with the nucleotides. There are a number of significant tertiary interactions, some of which are a result of the brominated base pairs and others that are directly mediated by the RNA 2' hydroxyl groups. The mismatched base pairs exhibit a solvent network as well as a stacking pattern with their nearest neighbors that validate previous thermodynamic analysis.
About this Structure
1QBP is a Protein complex structure of sequences from [1]. Full crystallographic information is available from OCA.
Reference
Crystal structure of a brominated RNA helix with four mismatched base pairs: An investigation into RNA conformational variability., Anderson AC, O'Neil RH, Filman DJ, Frederick CA, Biochemistry. 1999 Sep 28;38(39):12577-85. PMID:10504226
Page seeded by OCA on Thu Feb 21 14:37:57 2008
