Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'8-4-Internal Loop pdb2b9p1A.n1065-1138
Source: [PDB-id:chain] 2b9p:A (&rarr PDB)
Source: Information 50S RIBOSOMAL SUBUNIT FROM A CRYSTAL STRUCTURE OF THE RIBOSOME IN COMPLEX WITH TRNAS AND MRNA WITH A STOP CODON IN THE A-SITE. THIS FILE CONTAINS THE 50S SUBUNIT FROM A CRYSTAL STRUCTURE OF THE RIBOSOME IN COMPLEX WITH TRNAS AND MRNA WITH A STOP CODON IN THE A-SITE AND IS DESCRIBED IN REMARK 400.
Source: Compound 23S RIBOSOMAL RNA
Source: Resolution 6.46 ANGSTROMS.
Position (1066, 1137), (1075, 1132)
Primary structure ('_': anchors) _CGAAGACA_-_CGAG_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		1: C4'-exo, 4: C2'-exo, 6: C4'-exo, 9: C4'-exo, 10: C4'-exo, 13: O4'-endo, 14: C2'-exo, 15: C4'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 3 7 →
2 6 13 &larr
3 7 8 ↑
4 8 9 ↑
5 11 12 ↑
6 15 16 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 16 Watson-Crick/Watson-Crick cis y
2 3 13 O2'/Bifurcated ?
3 6 13 Bifurcated/O2' ?
4 7 13 Bifurcated/O2' trans y
5 10 11 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters