1l3z: Difference between revisions

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[[Image:1l3z.gif|left|200px]]


{{Structure
==Crystal Structure Analysis of an RNA Heptamer==
|PDB= 1l3z |SIZE=350|CAPTION= <scene name='initialview01'>1l3z</scene>, resolution 2.01&Aring;
<StructureSection load='1l3z' size='340' side='right'caption='[[1l3z]], [[Resolution|resolution]] 2.01&Aring;' scene=''>
|SITE=  
== Structural highlights ==
|LIGAND= <scene name='pdbligand=A:ADENOSINE-5&#39;-MONOPHOSPHATE'>A</scene>, <scene name='pdbligand=C:CYTIDINE-5&#39;-MONOPHOSPHATE'>C</scene>, <scene name='pdbligand=G:GUANOSINE-5&#39;-MONOPHOSPHATE'>G</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=U:URIDINE-5&#39;-MONOPHOSPHATE'>U</scene>
<table><tr><td colspan='2'>[[1l3z]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1L3Z OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1L3Z FirstGlance]. <br>
|ACTIVITY=
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.01&#8491;</td></tr>
|GENE=
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
|DOMAIN=
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1l3z FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1l3z OCA], [https://pdbe.org/1l3z PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1l3z RCSB], [https://www.ebi.ac.uk/pdbsum/1l3z PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1l3z ProSAT]</span></td></tr>
|RELATEDENTRY=
</table>
|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1l3z FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1l3z OCA], [http://www.ebi.ac.uk/pdbsum/1l3z PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1l3z RCSB]</span>
__TOC__
}}
</StructureSection>
 
[[Category: Large Structures]]
'''Crystal Structure Analysis of an RNA Heptamer'''
[[Category: Pan B]]
 
[[Category: Shi K]]
 
[[Category: Sundaralingam M]]
==Overview==
The crystal structure of an alternating RNA heptamer r(GUAUACA) has been determined to 2.0 A resolution and refined to an R(work) of 17.1% and R(free) of 18.5% using 2797 reflections. The heptamer crystallized in the space group C222 with a unit cell of a = 25.74, b = 106.58, c = 30.26 A and two independent strands in the asymmetric unit. Each heptamer forms a duplex with its symmetry-related strand and each duplex contains six Watson-Crick base pairs and 3'-end adenosine overhangs. Therefore, two kinds of duplex (duplex 1 and duplex 2) are formed. Duplexes 1 stack on each other forming a pseudo-continuous column, which is typical of the RNA packing mode, while duplex 2 is typical of A-DNA packing with its termini in abutting interactions. Overhang adenine residues stack within the duplexes with C3'-endo sugar pucker and C2'-endo sugar pucker in duplexes 1 and 2, respectively. A Na+ ion in the crystal lattice is water bridged to two N1 atoms of symmetry-related A7 bases.
 
==About this Structure==
1L3Z is a [[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=1L3Z OCA].
 
==Reference==
The crystal structure of an alternating RNA heptamer r(GUAUACA) forming a six base-paired duplex with 3'-end adenine overhangs., Shi K, Pan B, Sundaralingam M, Nucleic Acids Res. 2003 Mar 1;31(5):1392-7. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/12595546 12595546]
[[Category: Protein complex]]
[[Category: Pan, B.]]
[[Category: Shi, K.]]
[[Category: Sundaralingam, M.]]
[[Category: rna]]
 
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