Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'6-4-Internal Loop pdb1pnx1A.n887-898
Source: [PDB-id:chain] 1pnx:A (&rarr PDB)
Source: Information CRYSTAL STRUCTURE OF THE WILD TYPE RIBOSOME FROM E. COLI, 30S SUBUNIT OF 70S RIBOSOME. THIS FILE, 1PNX, CONTAINS ONLY MOLECULES OF THE 30S RIBOSOMAL SUBUNIT. THE 50S SUBUNIT IS IN THE PDB FILE 1PNY.
Source: Compound 16S RIBOSOMAL RNA
Source: Resolution 9.50 ANGSTROMS.
Position (880, 903), (887, 898)
Primary structure ('_': anchors) _GAGUAC_-_GAAA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		3: C2'-endo, 4: C2'-endo
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 &larr
3 3 5 →
4 4 10 &larr
5 6 7 ↑
6 6 11 →
7 7 8 ↑
8 9 10 ↑
9 11 12 ↑
10 12 13 ↑
11 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 13 Bifurcated/O2' trans
3 3 12 Hoogsteen/Hoogsteen trans
4 4 5 Hoogsteen/Sugar cis
5 4 11 O2'/Watson-Crick ?
6 5 10 Watson-Crick/O2' ?
7 5 11 Hoogsteen/Watson-Crick trans
8 6 10 O2'/Bifurcated trans
9 8 9 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters