Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'5-9-Internal Loop pdb2jl8FA.n1063-1150
Source: [PDB-id:chain] 2jl8:A (&rarr PDB)
Source: Information INSIGHTS INTO TRANSLATIONAL TERMINATION FROM THE STRUCTURE OF RF2 BOUND TO THE RIBOSOME (PART 4 OF 4). THIS FILE CONTAINS THE 50S SUBUNIT.
Source: Compound 23S RIBOSOMAL RNA
FLIPPED INTERNAL
Source: Resolution 3.45 ANGSTROMS.
Position (1072, 1141), (1082, 1135)
Primary structure ('_': anchors) _GUCGA_-_GAAGACAGC_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		2: C2'-endo, 3: C2'-endo, 4: C4'-exo, 5: C2'-exo, 7: C4'-exo, 14: C2'-endo, 15: C3'-exo, 16: C2'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		3: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 17 →
2 6 7 ↑
3 8 9 ↑
4 10 11 ↑
5 11 12 ↑
6 12 13 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 13 O2'/Bifurcated ?
2 1 18 Watson-Crick/Watson-Crick cis y
3 2 16 O2'/Bifurcated ?
4 2 17 Bifurcated/O2' ?
5 3 13 Bifurcated/O2' ?
6 3 14 O2'/Bifurcated ?
7 4 13 Bifurcated/O2' ?
8 5 9 Watson-Crick/Bifurcated cis y
9 6 8 Sugar/Watson-Crick cis y
10 7 8 Watson-Crick/Watson-Crick cis y
11 12 13 Bifurcated/O2' ?
12 14 15 Hoogsteen/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters