Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'5-5-Internal Loop pdb2b9p1A.n2602-2644
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 (2604, 2642), (2610, 2636)
Primary structure ('_': anchors) _UUUCC_-_GGUAG_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		2: C4'-exo, 3: C4'-exo, 4: O4'-endo, 5: C2'-exo, 6: C2'-exo, 8: O4'-exo, 10: C2'-exo, 11: C1'-endo, 13: C2'-exo, 14: C4'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 9 10 ↑
2 12 13 ↑
3 13 14 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 14 Watson-Crick/Watson-Crick cis
2 3 10 Sugar/Bifurcated trans y
3 4 10 Bifurcated/O2' ?
4 7 8 Watson-Crick/Watson-Crick cis y
5 7 9 Bifurcated/Bifurcated cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters