Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'0-4-11-3-3-6-Multiloop pdb2qbg1B.m44-434
Source: [PDB-id:chain] 2qbg:B (&rarr PDB)
Source: Information CRYSTAL STRUCTURE OF THE BACTERIAL RIBOSOME FROM ESCHERICHIA COLI IN COMPLEX WITH RIBOSOME RECYCLING FACTOR (RRF). THIS FILE CONTAINS THE 50S SUBUNIT OF THE SECOND 70S RIBOSOME, WITH RRF BOUND. THE ENTIRE CRYSTAL STRUCTURE CONTAINS TWO 70S RIBOSOMES AND IS DESCRIBED IN REMARK 400.
Source: Compound 23S RRNA
Source: Resolution 3.30 ANGSTROMS.
Position (45, 433), (46, 179), (184, 212), (224, 231), (235, 262), (266, 426)
Primary structure ('_': anchors) __-_GAAC_-_AGGAAAAGAAA_-_GAU_-_GCA_-_UAAAUA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		12: C2'-endo, 18: C2'-endo, 19: C2'-endo, 23: C2'-endo, 30: C4'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		19: syn, 30: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 2 4 →
2 3 4 ↑
3 5 6 ↑
4 6 7 ↑
5 9 10 ↑
6 10 11 ↑
7 11 12 ↑
8 13 14 ↑
9 13 38 →
10 14 15 ↑
11 15 16 ↑
12 16 17 ↑
13 17 33 &larr
14 18 24 →
15 18 31 ↑
16 19 21 ↑
17 22 23 ↑
18 24 25 ↑
19 25 26 ↑
20 27 28 ↑
21 28 29 ↑
22 30 34 →
23 32 33 ↑
24 34 35 ↑
25 35 36 ↑
26 38 39 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 5 Watson-Crick/Sugar trans y
2 1 12 O2'/Hoogsteen ?
3 1 39 Watson-Crick/Watson-Crick cis
4 2 3 Watson-Crick/Watson-Crick cis
5 2 12 Hoogsteen/O2' ?
6 6 12 Watson-Crick/Watson-Crick cis
7 6 39 O2'/Sugar ?
8 7 11 Watson-Crick/Watson-Crick cis
9 7 38 Sugar/O2' cis y
10 8 9 Watson-Crick/Watson-Crick cis
11 8 14 Sugar/O2' ?
12 11 13 O2'/Sugar cis y
13 12 38 Watson-Crick/Sugar trans y
14 13 37 Watson-Crick/Hoogsteen trans
15 16 25 O2'/Sugar cis y
16 16 34 O2'/Bifurcated ?
17 17 24 Sugar/O2' cis y
18 18 30 Hoogsteen/Watson-Crick cis y
19 18 31 Hoogsteen/O2' ?
20 18 33 Watson-Crick/Hoogsteen trans
21 19 23 Sugar/Hoogsteen trans
22 21 22 Watson-Crick/Watson-Crick cis
23 24 35 Watson-Crick/Watson-Crick trans
24 25 28 Sugar/Hoogsteen trans y
25 25 36 Watson-Crick/Watson-Crick trans
26 26 27 Watson-Crick/Watson-Crick cis
27 27 36 O2'/Sugar ?
28 28 35 Sugar/O2' ?
29 29 34 Watson-Crick/O2' ?
30 30 33 O2'/Bifurcated ?
31 31 32 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters