Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'6-9-Internal Loop pdb2v471A.n688-807
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 (681, 817), (688, 807)
Primary structure ('_': anchors) _CGAAAC_-_GAGAUAGCU_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		5: C4'-exo, 11: C2'-endo, 12: C2'-endo, 16: C2'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		5: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 3 ↑
3 3 15 &larr
4 4 5 &larr
5 4 15 →
6 6 7 ↑
7 6 13 →
8 9 10 ↑
9 10 11 &larr
10 13 14 ↑
11 18 19 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 12 Bifurcated/O2' ?
2 1 19 Watson-Crick/Watson-Crick cis
3 2 18 Watson-Crick/Watson-Crick cis y
4 3 17 Watson-Crick/Watson-Crick cis
5 4 14 Watson-Crick/Hoogsteen trans
6 7 11 Watson-Crick/Watson-Crick trans
7 8 9 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters