Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'5-7-Internal Loop pdb2jl61A.n1797-1832
Source: [PDB-id:chain] 2jl6:A (&rarr PDB)
Source: Information INSIGHTS INTO TRANSLATIONAL TERMINATION FROM THE STRUCTURE OF RF2 BOUND TO THE RIBOSOME (PART 2 OF 4). THIS FILE CONTAINS THE 50S SUBUNIT.
Source: Compound 23S RIBOSOMAL RNA
Source: Resolution 3.45 ANGSTROMS.
Position (1803, 1826), (1809, 1818)
Primary structure ('_': anchors) _GCGAA_-_GAGGUAU_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		2: C2'-endo, 3: C2'-endo, 4: C2'-endo, 10: C2'-endo, 13: C2'-endo, 14: C2'-endo, 15: C2'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		2: syn, 4: syn, 11: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 14 ↑
2 2 14 ↓
3 3 5 →
4 5 6 ↑
5 6 7 ↑
6 8 9 ↑
7 9 10 &larr
8 10 12 →
9 12 13 ↑
10 14 16 →
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 5 Sugar/O2' cis y
2 1 16 Watson-Crick/Watson-Crick cis
3 2 13 O2'/Bifurcated trans y
4 2 14 O2'/Bifurcated ?
5 3 12 Watson-Crick/Watson-Crick trans
6 3 13 Watson-Crick/O2' ?
7 5 9 Watson-Crick/O2' ?
8 5 10 Hoogsteen/Hoogsteen trans y
9 6 9 O2'/Bifurcated trans
10 7 8 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters