Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'8-8-Internal Loop pdb3ccrF9.n16-64
Source: [PDB-id:chain] 3ccr:9 (&rarr PDB)
Source: Information STRUCTURE OF ANISOMYCIN RESISTANT 50S RIBOSOMAL SUBUNIT: 23S RRNA MUTATION A2488C. DENSITY FOR ANISOMYCIN IS VISIBLE BUT NOT INCLUDED IN THE MODEL.
Source: Compound 5S RIBOSOMAL RNA
FLIPPED INTERNAL
Source: Resolution 3.00 ANGSTROMS.
Position (21, 59), (30, 50)
Primary structure ('_': anchors) _AAGAUAAG_-_GUUGCCUC_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		1: C2'-exo, 5: C2'-endo, 9: C2'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		3: syn, 5: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 3 →
3 3 4 &larr
4 5 19 &larr
5 6 7 ↑
6 7 8 ↑
7 9 10 ↑
8 12 13 ↑
9 13 14 ↑
10 14 15 ↑
11 15 16 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 2 Bifurcated/O2' ?
2 1 20 Watson-Crick/Watson-Crick cis y
3 2 14 Bifurcated/O2' cis y
4 2 19 Watson-Crick/Watson-Crick trans y
5 3 5 Watson-Crick/Watson-Crick cis y
6 3 13 Hoogsteen/Sugar cis y
7 4 12 Watson-Crick/O2' cis y
8 5 14 Watson-Crick/Watson-Crick cis y
9 5 19 O2'/Hoogsteen ?
10 6 13 Watson-Crick/Watson-Crick cis
11 8 9 Hoogsteen/Sugar cis y
12 8 11 Watson-Crick/O2' ?
13 10 11 Watson-Crick/Watson-Crick cis
14 15 19 Bifurcated/O2' trans
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters