Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'6-8-11-7-4-Multiloop pdb2hgj1A.m2056-2602
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 (2057, 2601), (2064, 2436), (2445, 2486), (2498, 2570), (2578, 2596)
Primary structure ('_': anchors) _AAAGAC_-_GAUAACAG_-_ACCUCGAUGUC_-_GGGUUCA_-_GGUC_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		2: C2'-exo, 3: C4'-exo, 5: C4'-exo, 8: C2'-exo, 10: C4'-exo, 11: O4'-endo, 12: C2'-exo, 20: C2'-exo, 22: C2'-exo, 23: C2'-exo, 24: O4'-endo, 26: C2'-exo, 28: C4'-exo, 29: C4'-exo, 33: C2'-exo, 34: C2'-exo, 36: C2'-exo, 37: C4'-exo, 40: C2'-exo, 41: C2'-exo, 42: C2'-exo, 44: C4'-exo, 45: O4'-endo, 46: C2'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		6: syn, 13: syn, 24: syn, 36: syn, 45: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 5 7 ↑
2 5 26 →
3 7 8 ↑
4 10 23 &larr
5 10 24 →
6 13 14 →
7 17 18 ↑
8 22 23 ↑
9 30 31 ↑
10 30 35 →
11 33 45 →
12 36 37 &larr
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 46 Watson-Crick/Watson-Crick cis
2 2 3 Hoogsteen/Watson-Crick cis y
3 3 26 Hoogsteen/Watson-Crick trans y
4 5 14 Watson-Crick/Watson-Crick cis
5 8 9 Watson-Crick/Watson-Crick cis
6 8 13 Hoogsteen/O2' ?
7 10 13 O2'/Bifurcated ?
8 10 15 Bifurcated/Watson-Crick cis y
9 14 15 Hoogsteen/Hoogsteen cis y
10 16 27 Watson-Crick/Bifurcated cis y
11 18 19 Watson-Crick/Watson-Crick cis
12 20 21 Watson-Crick/O2' ?
13 30 34 Watson-Crick/Watson-Crick cis
14 31 32 Watson-Crick/Watson-Crick cis
15 33 35 Hoogsteen/O2' ?
16 35 37 Watson-Crick/Watson-Crick cis y
17 40 41 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters