Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'4-6-Internal Loop pdb2f4v1A.n231-277
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 (233, 275), (238, 268)
Primary structure ('_': anchors) _AUCA_-_GACGAC_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		2: O4'-endo, 3: C3'-exo, 5: C1'-exo, 6: C2'-exo, 7: C4'-exo, 9: O4'-exo, 10: C2'-endo, 11: O4'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 2 4 ↓
2 4 14 →
3 5 9 ↑
4 5 12 →
5 6 8 →
6 7 8 ↑
7 12 13 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 14 Watson-Crick/Watson-Crick cis
2 2 11 O2'/Bifurcated ?
3 2 12 O2'/Bifurcated trans
4 4 13 Watson-Crick/Watson-Crick cis y
5 5 8 O2'/Watson-Crick ?
6 5 9 Bifurcated/O2' ?
7 5 11 Sugar/Hoogsteen trans y
8 6 7 Watson-Crick/Watson-Crick cis
9 6 12 Watson-Crick/O2' trans y
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters