Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'5-6-Internal Loop pdb1pnu10.n663-695
Source: [PDB-id:chain] 1pnu:0 (&rarr PDB)
Source: Information CRYSTAL STRUCTURE OF A STREPTOMYCIN DEPENDENT RIBOSOME FROM ESCHERICHIA COLI, 50S SUBUNIT OF 70S RIBOSOME. THIS FILE, 1PNU, CONTAINS ONLY MOLECULES OF THE 50S RIBOSOMAL SUBUNIT. THE 30S SUBUNIT, MRNA, P-SITE TRNA, AND A-SITE TRNA ARE IN THE PDB FILE 1PNS.
Source: Compound 23S RIBOSOMAL RNA
Source: Resolution 8.70 ANGSTROMS.
Position (665, 693), (671, 686)
Primary structure ('_': anchors) _UGAAA_-_CGGAGG_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		None
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 3 ↑
3 3 11 &larr
4 4 5 ↑
5 4 12 →
6 5 6 ↑
7 6 7 ↑
8 8 9 ↑
9 9 10 ↑
10 10 11 ↑
11 12 13 ↑
12 13 15 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 15 Watson-Crick/Watson-Crick cis
2 3 12 Bifurcated/O2' ?
3 4 10 Watson-Crick/O2' ?
4 4 11 O2'/Bifurcated ?
5 5 10 Sugar/Hoogsteen trans y
6 7 8 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters