Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'6-8-11-7-4-Multiloop pdb2hgq1A.m2056-2602
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 (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) 		3: C4'-exo, 5: C4'-exo, 8: C2'-exo, 10: C4'-exo, 11: O4'-endo, 16: C4'-exo, 20: C2'-exo, 21: C2'-exo, 23: C2'-exo, 24: O4'-endo, 28: C2'-exo, 32: C4'-exo, 34: C2'-exo, 39: C2'-exo, 40: C2'-exo, 41: C2'-exo, 44: O4'-endo, 45: O4'-endo, 46: C2'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		6: syn, 20: syn, 24: syn, 45: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 4 25 →
2 5 7 ↑
3 5 26 →
4 7 8 ↑
5 10 23 &larr
6 10 24 →
7 15 16 ↑
8 16 17 ↑
9 17 18 ↑
10 22 23 ↑
11 30 35 →
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 3 26 Hoogsteen/Watson-Crick trans y
3 5 14 Watson-Crick/Watson-Crick cis
4 7 13 Watson-Crick/O2' ?
5 7 14 Sugar/O2' ?
6 8 9 Watson-Crick/Watson-Crick cis
7 10 13 O2'/Bifurcated ?
8 10 15 Hoogsteen/Watson-Crick cis y
9 13 20 Hoogsteen/O2' ?
10 16 22 Hoogsteen/Watson-Crick trans y
11 18 19 Watson-Crick/Watson-Crick cis
12 20 21 Hoogsteen/O2' ?
13 30 34 Watson-Crick/Watson-Crick cis
14 31 32 Watson-Crick/Watson-Crick cis
15 32 33 Hoogsteen/O2' ?
16 40 41 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters