Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'4-4-Internal Loop pdb2gybFA.n543-730
Source: [PDB-id:chain] 2gyb:A (&rarr PDB)
Source: Information STRUCTURE OF THE 30S SUBUNIT OF A SECM-STALLED E. COLI RIBOSOME COMPLEX OBTAINED BY FITTING ATOMIC MODELS FOR RNA AND PROTEIN COMPONENTS INTO CRYO-EM MAP EMD-1143
Source: Compound 16S RIBOSOMAL RNA
FLIPPED INTERNAL
Source: Resolution 2.00 ANGSTROMS.
Position (545, 728), (550, 723)
Primary structure ('_': anchors) _CAGG_-_CGCA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		None
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 3 9 →
5 4 8 →
6 5 6 ↑
7 5 10 &larr
8 7 8 ↑
9 8 9 ↑
10 10 11 ↑
11 11 12 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 12 Watson-Crick/Watson-Crick cis y
2 3 10 Hoogsteen/Bifurcated trans
3 4 9 Hoogsteen/Watson-Crick trans y
4 4 10 O2'/Bifurcated ?
5 5 8 O2'/Bifurcated trans y
6 6 7 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters