Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'4-7-Internal Loop pdb2f4v1A.n656-692
Source: [PDB-id:chain] 2f4v:A (&rarr PDB)
Source: Information 30S RIBOSOME + DESIGNER ANTIBIOTIC
Source: Compound 16S RIBOSOMAL RNA
Source: Resolution 3.80 ANGSTROMS.
Position (662, 686), (667, 678)
Primary structure ('_': anchors) _AGUA_-_GCAGAUA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		4: C1'-exo, 5: O4'-endo, 8: C2'-exo, 9: O4'-endo, 10: O4'-endo, 11: C1'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 3 ↑
3 3 4 ↑
4 5 12 →
5 6 8 →
6 7 8 ↑
7 9 11 →
8 12 13 ↑
9 13 14 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 15 Watson-Crick/Watson-Crick cis y
2 3 12 O2'/Watson-Crick ?
3 3 13 Hoogsteen/Sugar trans y
4 4 12 Hoogsteen/Watson-Crick trans
5 5 8 O2'/Bifurcated ?
6 6 7 Watson-Crick/Watson-Crick cis y
7 6 12 Watson-Crick/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters