Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'9-7-Internal Loop pdb2gy9FA.n1222-1231
Source: [PDB-id:chain] 2gy9:A (&rarr PDB)
Source: Information STRUCTURE OF THE 30S SUBUNIT OF A PRE-TRANSLOCATIONAL E. COLI RIBOSOME OBTAINED BY FITTING ATOMIC MODELS FOR RNA AND PROTEIN COMPONENTS INTO CRYO-EM MAP EMD-1056
Source: Compound 16S RIBOSOMAL RNA
FLIPPED INTERNAL
Source: Resolution 2.00 ANGSTROMS.
Position (1214, 1241), (1222, 1231)
Primary structure ('_': anchors) _CAAGCGGAC_-_AAGCGAC_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		3: C2'-exo, 5: C2'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		4: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 4 20 ↑
2 6 7 ↑
3 7 8 ↑
4 8 14 →
5 9 10 ↑
6 10 11 ↑
7 13 14 ↑
8 16 17 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 4 Bifurcated/O2' ?
2 1 7 Sugar/Sugar cis y
3 1 20 Watson-Crick/Watson-Crick cis
4 7 16 Watson-Crick/Watson-Crick cis
5 8 15 Bifurcated/O2' ?
6 9 14 O2'/Bifurcated trans y
7 11 12 Watson-Crick/Watson-Crick cis
8 13 14 Bifurcated/O2' ?
9 17 20 Sugar/O2' ?
10 18 19 C/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters