Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'4-2-5-4-3-0-4-Multiloop pdb2qbe1B.m812-1179
Source: [PDB-id:chain] 2qbe: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 FIRST 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 (817, 1174), (822, 835), (838, 924), (930, 955), (960, 971), (975, 1147), (1148, 1169)
Primary structure ('_': anchors) _GAAA_-_GC_-_AGACA_-_AAGA_-_AGA_-__-_GGUA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		3: C2'-exo, 16: C2'-endo, 20: C2'-endo, 21: C2'-endo, 26: C2'-endo, 28: C2'-exo, 33: C2'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		21: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 33 &larr
3 3 4 ↑
4 3 35 →
5 4 5 ↑
6 5 17 ↑
7 6 8 →
8 7 8 ↑
9 8 9 ↑
10 10 12 →
11 12 13 ↑
12 13 14 ↑
13 14 15 ↑
14 18 19 ↑
15 19 20 &larr
16 20 34 →
17 21 26 ↓
18 21 32 ↑
19 22 23 ↑
20 22 27 →
21 24 25 ↑
22 28 31 ↓
23 29 30 ↑
24 32 33 ↑
25 35 36 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 36 Watson-Crick/Watson-Crick cis
2 2 34 O2'/Watson-Crick ?
3 2 35 Bifurcated/O2' trans
4 3 13 Sugar/Sugar trans y
5 3 33 Bifurcated/O2' ?
6 3 34 Watson-Crick/Hoogsteen trans
7 4 14 O2'/Sugar ?
8 4 20 Hoogsteen/Hoogsteen trans
9 5 19 O2'/Bifurcated trans
10 6 7 Watson-Crick/Watson-Crick cis
11 6 14 Bifurcated/Hoogsteen cis y
12 9 13 Watson-Crick/Watson-Crick cis
13 10 11 Watson-Crick/Watson-Crick cis
14 13 35 Sugar/O2' ?
15 17 18 Watson-Crick/Watson-Crick cis
16 18 21 Bifurcated/O2' ?
17 18 26 Watson-Crick/O2' ?
18 20 32 Bifurcated/O2' ?
19 21 26 Bifurcated/O2' ?
20 22 26 Sugar/Hoogsteen trans
21 23 24 Watson-Crick/Watson-Crick cis
22 28 29 Watson-Crick/Watson-Crick cis
23 30 31 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters