Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'0-4-11-3-3-6-Multiloop pdb2i2v1B.m44-434
Source: [PDB-id:chain] 2i2v:B (&rarr PDB)
Source: Information CRYSTAL STRUCTURE OF RIBOSOME WITH MESSENGER RNA AND THE ANTICODON STEM-LOOP OF P-SITE TRNA. THIS FILE CONTAINS THE 50S SUBUNIT OF ONE 70S RIBOSOME. THE ENTIRE CRYSTAL STRUCTURE CONTAINS TWO 70S RIBOSOMES AND IS DESCRIBED IN REMARK 400.
Source: Compound 23S RIBOSOMAL RNA
Source: Resolution 3.22 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 34 35 ↑
25 35 36 ↑
26 38 39 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 39 Watson-Crick/Watson-Crick cis
2 2 3 Watson-Crick/Watson-Crick cis
3 6 12 Watson-Crick/Watson-Crick cis
4 6 39 O2'/Sugar ?
5 7 11 Watson-Crick/Watson-Crick cis
6 7 38 Sugar/O2' ?
7 8 9 Watson-Crick/Watson-Crick cis
8 8 14 Sugar/O2' ?
9 11 13 O2'/Sugar cis y
10 12 38 Watson-Crick/Sugar trans y
11 13 37 Watson-Crick/Hoogsteen trans
12 16 25 O2'/Sugar cis y
13 16 34 O2'/Bifurcated ?
14 17 24 Sugar/O2' cis y
15 17 34 O2'/Watson-Crick trans y
16 18 31 O2'/Watson-Crick ?
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 36 Watson-Crick/Watson-Crick trans
22 26 27 Watson-Crick/Watson-Crick cis
23 27 36 O2'/Sugar ?
24 28 35 Sugar/O2' ?
25 29 34 Watson-Crick/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