Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'5-7-Internal Loop pdb1yl41A.n231-277
Source: [PDB-id:chain] 1yl4:A (&rarr PDB)
Source: Information CRYSTAL STRUCTURE OF 70S RIBOSOME WITH THRS OPERATOR AND TRNAS. 30S SUBUNIT. THE COORDINATES FOR THE 50S SUBUNIT ARE IN THE PDB ENTRY 1YL3
Source: Compound 16S RRNA
Source: Resolution 5.50 ANGSTROMS.
Position (232, 276), (238, 268)
Primary structure ('_': anchors) _CAUCA_-_GACGACG_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		3: C4'-exo, 4: O4'-endo, 6: C4'-exo, 7: C2'-exo, 11: C4'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		3: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 3 5 ↓
2 3 6 ↑
3 6 10 ↑
4 7 9 →
5 8 9 ↑
6 15 16 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 16 Watson-Crick/Watson-Crick cis
2 3 13 Hoogsteen/Watson-Crick trans
3 5 14 Watson-Crick/Watson-Crick cis y
4 6 12 Sugar/Watson-Crick cis y
5 7 8 Watson-Crick/Watson-Crick cis y
6 7 13 Sugar/Sugar trans y
7 10 12 Watson-Crick/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters