Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'0-4-11-3-3-6-Multiloop pdb1vs81B.m44-434
Source: [PDB-id:chain] 1vs8:B (&rarr PDB)
Source: Information CRYSTAL STRUCTURE OF THE BACTERIAL RIBOSOME FROM ESCHERICHIA COLI IN COMPLEX WITH THE ANTIBIOTIC KASUGAMYIN AT 3.5A RESOLUTION. THIS FILE CONTAINS THE 30S 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 3.46 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 cis y
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 cis y
14 16 34 O2'/Bifurcated ?
15 17 24 Sugar/O2' ?
16 17 34 Hoogsteen/Watson-Crick trans y
17 18 31 O2'/Watson-Crick ?
18 18 33 Watson-Crick/Hoogsteen trans
19 19 23 Sugar/Hoogsteen trans
20 21 22 Watson-Crick/Watson-Crick cis
21 24 35 Watson-Crick/Watson-Crick trans
22 25 28 Sugar/Watson-Crick cis y
23 25 36 Watson-Crick/Watson-Crick trans
24 26 27 Watson-Crick/Watson-Crick cis
25 27 36 O2'/Sugar ?
26 28 35 Sugar/O2' ?
27 29 34 Watson-Crick/O2' ?
28 30 33 O2'/Bifurcated ?
29 31 32 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters