2gq7: Difference between revisions

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New page: left|200px<br /><applet load="2gq7" size="350" color="white" frame="true" align="right" spinBox="true" caption="2gq7, resolution 1.6Å" /> '''Crystal structure of ...
 
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[[Image:2gq7.gif|left|200px]]<br /><applet load="2gq7" size="350" color="white" frame="true" align="right" spinBox="true"
caption="2gq7, resolution 1.6&Aring;" />
'''Crystal structure of an RNA racemate'''<br />


==Overview==
==Crystal structure of an RNA racemate==
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.
<StructureSection load='2gq7' size='340' side='right'caption='[[2gq7]], [[Resolution|resolution]] 1.60&Aring;' scene=''>
 
== Structural highlights ==
==About this Structure==
<table><tr><td colspan='2'>[[2gq7]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GQ7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2GQ7 FirstGlance]. <br>
2GQ7 is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ] with <scene name='pdbligand=CA:'>CA</scene> and <scene name='pdbligand=GOL:'>GOL</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GQ7 OCA].  
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.6&#8491;</td></tr>
 
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=0C:L-CYTIDINE-5-MONOPHOSPHATE'>0C</scene>, <scene name='pdbligand=0G:L-GUANOSINE-5-MONOPHOSPHATE'>0G</scene>, <scene name='pdbligand=0U:L-URIDINE-5-MONOPHOSPHATE'>0U</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
==Reference==
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2gq7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2gq7 OCA], [https://pdbe.org/2gq7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2gq7 RCSB], [https://www.ebi.ac.uk/pdbsum/2gq7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2gq7 ProSAT]</span></td></tr>
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:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=16699193 16699193]
</table>
[[Category: Protein complex]]
__TOC__
[[Category: Betzel, C.]]
</StructureSection>
[[Category: Erdmann, V.A.]]
[[Category: Large Structures]]
[[Category: Klussmann, S.]]
[[Category: Betzel C]]
[[Category: Perbandt, M.]]
[[Category: Erdmann VA]]
[[Category: Rypniewski, W.]]
[[Category: Klussmann S]]
[[Category: Vallazza, M.]]
[[Category: Perbandt M]]
[[Category: CA]]
[[Category: Rypniewski W]]
[[Category: GOL]]
[[Category: Vallazza M]]
[[Category: double helix]]
[[Category: racemate]]
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jan 29 20:05:37 2008''

Latest revision as of 12:29, 14 February 2024

Crystal structure of an RNA racemateCrystal structure of an RNA racemate

Structural highlights

2gq7 is a 4 chain structure. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 1.6Å
Ligands:, , , ,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

2gq7, resolution 1.60Å

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