Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'2-6-Internal Loop pdb2hgq1A.n2620-2779
Source: [PDB-id:chain] 2hgq:A (&rarr PDB)
Source: Information CRYSTAL STRUCTURE OF THE 70S THERMUS THERMOPHILUS RIBOSOME WITH TRANSLOCATED AND ROTATED SHINE-DALGARNO DUPLEX. THIS ENTRY 2HGQ CONTAINS 50S RIBOSOMAL SUBUNIT. THE 30S RIBOSOMAL SUBUNIT CAN BE FOUND IN PDB ENTRY 2HGP.
Source: Compound 23S RIBOSOMAL RNA
Source: Resolution 5.50 ANGSTROMS.
Position (2627, 2772), (2630, 2765)
Primary structure ('_': anchors) _GA_-_AAGAUG_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		1: O4'-endo, 5: C2'-exo, 8: C2'-exo, 11: C2'-exo, 12: C2'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		11: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 6 &larr
3 3 4 ↑
4 3 9 →
5 4 6 →
6 5 6 ↑
7 7 9 ↓
8 7 12 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 12 Watson-Crick/Watson-Crick cis
2 2 3 Hoogsteen/O2' ?
3 2 7 O2'/Watson-Crick trans y
4 3 4 Hoogsteen/O2' ?
5 3 6 Sugar/Hoogsteen trans y
6 4 5 Watson-Crick/Watson-Crick cis
7 10 11 Hoogsteen/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters