Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'4-2-5-4-3-0-4-Multiloop pdb2i2v1B.m812-1179
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 (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: C1'-exo, 21: C2'-endo, 26: C2'-endo, 28: C2'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		21: syn, 26: 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 11 12 ↑
12 12 13 ↑
13 13 14 ↑
14 14 15 ↑
15 18 19 ↑
16 19 20 &larr
17 20 34 →
18 21 26 ↓
19 21 32 ↑
20 22 23 ↑
21 22 27 →
22 24 25 ↑
23 28 31 ↓
24 29 30 ↑
25 32 33 ↑
26 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 17 18 Watson-Crick/Watson-Crick cis
15 18 21 Bifurcated/O2' ?
16 18 26 Watson-Crick/O2' ?
17 20 32 Bifurcated/O2' ?
18 21 26 Bifurcated/O2' ?
19 22 26 Sugar/Hoogsteen trans
20 23 24 Watson-Crick/Watson-Crick cis
21 28 29 Watson-Crick/Watson-Crick cis
22 30 31 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters