Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'24-Segment pdb2hgj1A.i340-365
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 (340, 365)
Primary structure ('_': anchors) _GCCAGAGAGGGUGAAAGCCCCGUA_
Bases with unusual sugar puckers
(Standard: C3'-endo)
6: C4'-exo, 7: C4'-exo, 8: C4'-exo, 17: C4'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti)
8: syn, 24: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 2 3
2 4 5
3 7 26
4 8 18
5 10 11
6 12 21
7 17 20
8 18 19
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 2 19 Watson-Crick/Bifurcated cis
2 3 18 Watson-Crick/Watson-Crick cis
3 4 8 Watson-Crick/Watson-Crick cis
4 7 25 Hoogsteen/O2' ?
5 8 18 O2'/Bifurcated ?
6 8 25 Bifurcated/O2' ?
7 9 24 Sugar/Watson-Crick trans y
8 10 22 Watson-Crick/Watson-Crick cis y
9 12 13 Sugar/Watson-Crick cis y
10 12 20 Watson-Crick/Watson-Crick cis
11 13 17 Hoogsteen/Watson-Crick trans y
12 15 16 Hoogsteen/O2' ?
13 17 20 Bifurcated/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters