2gpm
From Proteopedia
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|PDB= 2gpm |SIZE=350|CAPTION= <scene name='initialview01'>2gpm</scene>, resolution 1.4Å | |PDB= 2gpm |SIZE=350|CAPTION= <scene name='initialview01'>2gpm</scene>, resolution 1.4Å | ||
|SITE= | |SITE= | ||
| - | |LIGAND= <scene name='pdbligand=CA:CALCIUM ION'>CA</scene> | + | |LIGAND= <scene name='pdbligand=C:CYTIDINE-5'-MONOPHOSPHATE'>C</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=G:GUANOSINE-5'-MONOPHOSPHATE'>G</scene>, <scene name='pdbligand=U:URIDINE-5'-MONOPHOSPHATE'>U</scene> |
|ACTIVITY= | |ACTIVITY= | ||
|GENE= | |GENE= | ||
| + | |DOMAIN= | ||
| + | |RELATEDENTRY=[[2g32|2G32]] | ||
| + | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2gpm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2gpm OCA], [http://www.ebi.ac.uk/pdbsum/2gpm PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2gpm RCSB]</span> | ||
}} | }} | ||
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[[Category: Rypniewski, W.]] | [[Category: Rypniewski, W.]] | ||
[[Category: Vallazza, M.]] | [[Category: Vallazza, M.]] | ||
| - | [[Category: CA]] | ||
[[Category: double helix]] | [[Category: double helix]] | ||
[[Category: racemate]] | [[Category: racemate]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 03:19:45 2008'' |
Revision as of 00:19, 31 March 2008
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| , resolution 1.4Å | |||||||
|---|---|---|---|---|---|---|---|
| Ligands: | , , , | ||||||
| Related: | 2G32
| ||||||
| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
Crystal structure of an RNA racemate
Overview
The racemate of the RNA duplex r(CUGGGCGG).r(CCGCCUGG) from Thermus flavus 5S rRNA has been crystallized and examined by X-ray crystallography. The space group is P1(_) with approximate unit-cell parameters a = 26.5, b = 38.0, c = 45.4 Angstrom, alpha = 113.1, beta = 100.5, gamma = 93.3 degrees. The structure was solved by molecular replacement. There are four RNA duplexes in the unit cell. The crystal lattice consists of columns of RNA duplexes. The duplexes are stacked end-to-end and are stabilized by intermolecular base-stacking interactions. Within each column the L-duplexes and D-duplexes are stacked alternately. Every other duplex in each stack has two alternative conformations, approximately equally occupied, corresponding to molecules oriented in opposite directions. Neighbouring columns are related by the crystallographic centre of symmetry. The unit cell also contains approximately 250 ordered water molecules and six ordered calcium ions. A glycerol molecule is visible in the minor groove interacting with a guanosine residue.
About this Structure
2GPM is a Protein complex structure of sequences from [1]. Full crystallographic information is available from OCA.
Reference
The first crystal structure of an RNA racemate., Rypniewski W, Vallazza M, Perbandt M, Klussmann S, Delucas LJ, Betzel C, Erdmann VA, Acta Crystallogr D Biol Crystallogr. 2006 Jun;62(Pt 6):659-64. Epub 2006, May 12. PMID:16699193
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