1L3Z image
Deposition Date 2002-03-04
Release Date 2003-02-25
Last Version Date 2024-02-14
Entry Detail
PDB ID:
1L3Z
Keywords:
RNA
Title:
Crystal Structure Analysis of an RNA Heptamer
Biological Source:
Source Organism:
Method Details:
Experimental Method:
X-RAY DIFFRACTION
Resolution:
2.01 Å
R-Value Free:
0.22
R-Value Work:
0.18
R-Value Observed:
0.18
Space Group:
C 2 2 2
1L3Z validation report
Macromolecular Entities
Polymer Type:polyribonucleotide
Molecule:5'-R(*GP*UP*AP*UP*AP*CP*A)-3'
Chain IDs:A, B
Chain Length:7
Number of Molecules:2
Biological Source:
Ligand Molecules
NA
Primary Citation
The crystal structure of an alternating RNA heptamer r(GUAUACA) forming a six base-paired duplex with 3'-end adenine overhangs
Nucleic Acids Res. 31 1392 1397 (2003)
PMID: 12595546 DOI: 10.1093/nar/gkg226

Abstact

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.

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Primary Citation of related structures
1L3Z
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