Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'0-4-11-3-3-6-Multiloop pdb2z4l1B.m44-434
Source: [PDB-id:chain] 2z4l:B (&rarr PDB)
Source: Information CRYSTAL STRUCTURE OF THE BACTERIAL RIBOSOME FROM ESCHERICHIA COLI IN COMPLEX WITH PAROMOMYCIN AND RIBOSOME RECYCLING FACTOR (RRF). THIS FILE CONTAINS THE 50S SUBUNIT OF THE FIRST 70S RIBOSOME, WITH PAROMOMYCIN AND RRF BOUND. THE ENTIRE CRYSTAL STRUCTURE CONTAINS TWO 70S RIBOSOMES AND IS DESCRIBED IN REMARK 400.
Source: Compound 23S RRNA
Source: Resolution 4.45 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 1 12 &larr
2 2 4 →
3 3 4 ↑
4 5 6 ↑
5 6 7 ↑
6 9 10 ↑
7 10 11 ↑
8 11 12 ↑
9 13 14 ↑
10 13 38 →
11 14 15 ↑
12 15 16 ↑
13 16 17 ↑
14 17 33 &larr
15 18 24 →
16 18 31 ↑
17 19 21 ↑
18 22 23 ↑
19 24 25 ↑
20 25 26 ↑
21 27 28 ↑
22 28 29 ↑
23 30 34 →
24 32 33 ↑
25 34 35 ↑
26 35 36 ↑
27 38 39 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 12 O2'/Hoogsteen ?
2 1 39 Watson-Crick/Watson-Crick cis
3 2 3 Watson-Crick/Watson-Crick cis
4 6 12 Watson-Crick/Watson-Crick cis
5 6 39 O2'/Sugar ?
6 7 11 Watson-Crick/Watson-Crick cis
7 7 38 Sugar/O2' ?
8 8 9 Watson-Crick/Watson-Crick cis
9 8 14 Sugar/O2' ?
10 11 13 O2'/Sugar cis y
11 12 38 Watson-Crick/Sugar trans y
12 13 37 Watson-Crick/Hoogsteen trans
13 16 25 O2'/Sugar ?
14 16 34 O2'/Bifurcated ?
15 17 24 Sugar/O2' cis y
16 18 31 Hoogsteen/O2' ?
17 18 33 Watson-Crick/Hoogsteen trans
18 19 23 Sugar/Hoogsteen trans
19 21 22 Watson-Crick/Watson-Crick cis
20 24 35 Watson-Crick/Watson-Crick trans
21 25 28 Sugar/Bifurcated cis y
22 25 36 Watson-Crick/Watson-Crick trans
23 26 27 Watson-Crick/Watson-Crick cis
24 27 36 O2'/Sugar ?
25 28 35 Sugar/O2' ?
26 30 33 O2'/Bifurcated ?
27 31 32 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters