Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'6-4-Internal Loop pdb1yl41A.n591-607
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 (584, 612), (591, 607)
Primary structure ('_': anchors) _GAAAGA_-_GGGA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		1: C4'-exo, 2: C4'-exo, 6: C4'-exo, 7: C4'-exo, 12: C2'-exo, 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 2 12 &larr
2 3 4 ↑
3 4 5 ↑
4 5 6 ↑
5 6 7 ↑
6 7 8 ↑
7 9 10 ↑
8 10 11 ↑
9 11 12 ↑
10 13 14 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 14 Watson-Crick/Watson-Crick cis
2 2 12 Bifurcated/O2' ?
3 2 13 Bifurcated/O2' trans y
4 7 10 Watson-Crick/Watson-Crick cis
5 8 9 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters