Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'9-6-Internal Loop pdb2v471A.n1167-1181
Source: [PDB-id:chain] 2v47:A (&rarr PDB)
Source: Information STRUCTURE OF THE RIBOSOME RECYCLING FACTOR BOUND TO THE THERMUS THERMOPHILUS 70S RIBOSOME WITH MRNA, ASL-PHE AND TRNA-FMET (PART 2 OF 4). THIS FILE CONTAINS THE 50S SUBUNIT FOR MOLECULE 1.
Source: Compound 23S RIBOSOMAL RNA
Source: Resolution 3.8 ANGSTROMS.
Position (1157, 1188), (1167, 1181)
Primary structure ('_': anchors) _GAUGAAGGC_-_GCUGGA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		1: C2'-exo, 4: C2'-endo, 5: C2'-endo, 17: C2'-endo, 18: 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 3 18 ↓
3 5 17 &larr
4 6 7 ↑
5 6 18 →
6 7 8 ↑
7 8 9 ↑
8 9 10 ↑
9 10 11 ↑
10 12 13 ↑
11 13 14 ↑
12 15 16 ↑
13 16 17 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 19 Watson-Crick/Watson-Crick cis
2 2 18 Watson-Crick/O2' ?
3 5 16 Watson-Crick/O2' ?
4 5 17 Bifurcated/O2' ?
5 5 18 Hoogsteen/Sugar trans
6 6 16 Bifurcated/O2' ?
7 6 17 Sugar/Hoogsteen trans y
8 6 19 O2'/Sugar ?
9 7 16 O2'/Bifurcated ?
10 8 15 Watson-Crick/Watson-Crick cis
11 11 12 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters