Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'4-7-Internal Loop pdb3d5c1A.n667-678
Source: [PDB-id:chain] 3d5c: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 THE SECOND 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 (662, 686), (667, 678)
Primary structure ('_': anchors) _AGUA_-_GCAGAUA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		4: C2'-endo, 5: C4'-exo, 6: C2'-exo, 9: C2'-endo, 10: C2'-endo, 11: C2'-endo
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 5 9 ↑
4 5 12 →
5 6 8 →
6 7 8 ↑
7 12 13 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 15 Watson-Crick/Watson-Crick cis
2 3 12 O2'/Bifurcated ?
3 3 13 Hoogsteen/Sugar trans y
4 4 12 Hoogsteen/Watson-Crick trans
5 5 8 O2'/Bifurcated ?
6 5 11 Sugar/Hoogsteen trans
7 6 7 Watson-Crick/Watson-Crick cis
8 6 12 Watson-Crick/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters