Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'20-Segment pdb2hgj1A.i581-602
Source: [PDB-id:chain] 2hgj:A (&rarr PDB)
Source: Information CRYSTAL STRUCTURE OF THE 70S THERMUS THERMOPHILUS RIBOSOME SHOWING HOW THE 16S 3'-END MIMICKS MRNA E AND P CODONS. THIS ENTRY 2HGJ CONTAINS 50S RIBOSOMAL SUBUNIT. THE 30S RIBOSOMAL SUBUNIT CAN BE FOUND IN PDB ENTRY 2HGI.
Source: Compound 23S RIBOSOMAL RNA
Source: Resolution 5.00 ANGSTROMS.
Position (581, 602)
Primary structure ('_': anchors) _GCGUGCCUAUUGAAGCAUGA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		2: C2'-exo, 4: C2'-exo, 9: C2'-exo, 14: C4'-exo, 15: C2'-exo, 16: C4'-exo, 17: C4'-exo, 19: C2'-exo, 21: C4'-exo
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 6 7 ↑
5 8 20 →
6 12 13 ↑
7 14 18 ↑
8 15 16 ↑
9 20 21 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 6 21 Watson-Crick/Watson-Crick cis y
2 7 20 Watson-Crick/Watson-Crick cis
3 8 9 Watson-Crick/Watson-Crick cis y
4 8 19 Watson-Crick/Watson-Crick trans y
5 11 13 Hoogsteen/O2' ?
6 11 14 O2'/Watson-Crick ?
7 14 16 C/O2' ?
8 19 20 Hoogsteen/Watson-Crick cis y
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters