Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'5-4-Internal Loop pdb3d5a1A.n1397-1454
Source: [PDB-id:chain] 3d5a:A (&rarr PDB)
Source: Information STRUCTURAL BASIS FOR TRANSLATION TERMINATION ON THE 70S RIBOSOME. THIS FILE CONTAINS THE 30S SUBUNIT, RELEASE FACTOR 1 (RF1), TWO TRNA, AND MRNA MOLECULES OF ONE 70S RIBOSOME. THE ENTIRE CRYSTAL STRUCTURE CONTAINS TWO 70S RIBOSOMES AS DESCRIBED IN REMARK 400.
Source: Compound 16S RRNA
Source: Resolution 3.21 ANGSTROMS.
Position (1409, 1442), (1415, 1437)
Primary structure ('_': anchors) _GAAGU_-_CCGA_
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 3 4 ↑
3 3 12 →
4 4 5 ↑
5 5 6 ↑
6 6 7 ↑
7 8 9 ↑
8 9 10 ↑
9 10 11 ↑
10 12 13 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 13 Watson-Crick/Watson-Crick cis
2 2 12 O2'/Bifurcated trans y
3 3 11 Bifurcated/O2' ?
4 4 11 Sugar/Hoogsteen trans
5 5 10 Watson-Crick/Watson-Crick cis
6 6 9 Watson-Crick/Watson-Crick cis y
7 7 8 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters