Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'4-2-Internal Loop pdb1yl41A.n245-263
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 (240, 266), (245, 263)
Primary structure ('_': anchors) _AGUU_-_AA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		1: C4'-exo, 2: C2'-exo, 3: C4'-exo, 5: C4'-exo, 10: C2'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		2: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 5 6 ↑
2 6 8 →
3 8 9 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 10 Watson-Crick/Watson-Crick cis y
2 2 9 Watson-Crick/Bifurcated trans y
3 3 6 Hoogsteen/Watson-Crick cis y
4 4 9 Watson-Crick/Watson-Crick cis
5 4 10 Bifurcated/O2' ?
6 6 7 Watson-Crick/Watson-Crick cis
7 9 10 C/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters