Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'4-6-5-6-2-Multiloop pdb1vsa1w.m256-454
Source: [PDB-id:chain] 1vsa:w (&rarr PDB)
Source: Information CRYSTAL STRUCTURE OF A 70S RIBOSOME-TRNA COMPLEX REVEALS FUNCTIONAL INTERACTIONS AND REARRANGEMENTS. THIS FILE, 1VSA, CONTAINS THE 50S RIBOSOME SUBUNIT. 30S RIBOSOME SUBUNIT IS IN THE FILE 2OW8
Source: Compound 23S LARGE SUBUNIT RIBOSOMAL RNA
Source: Resolution 3.71 ANGSTROMS.
Position (258, 452), (263, 283), (290, 397), (403, 427), (434, 449)
Primary structure ('_': anchors) _UAAA_-_GGUCGU_-_GAGUA_-_GAAUCU_-_AA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		3: C4'-exo, 12: C4'-exo, 15: C2'-exo, 16: C4'-exo, 17: C4'-exo, 18: C4'-exo, 19: C4'-exo, 26: C4'-exo, 27: C4'-exo, 30: C3'-exo, 33: C2'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 2 33 →
2 3 4 ↑
3 3 16 →
4 5 6 ↑
5 7 8 ↑
6 8 9 ↑
7 14 27 ↓
8 16 33 ↑
9 17 19 →
10 18 23 &larr
11 20 21 ↑
12 20 24 →
13 22 23 ↑
14 24 25 ↑
15 27 29 →
16 31 32 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 33 Watson-Crick/Watson-Crick cis
2 2 16 Watson-Crick/Watson-Crick cis
3 3 9 Sugar/O2' ?
4 3 10 Watson-Crick/Hoogsteen trans
5 4 9 O2'/Bifurcated trans y
6 5 8 O2'/Bifurcated trans
7 6 7 Watson-Crick/Watson-Crick cis
8 12 14 O2'/Bifurcated ?
9 12 27 Watson-Crick/Watson-Crick cis
10 13 14 O2'/Watson-Crick ?
11 14 15 Watson-Crick/Watson-Crick cis
12 17 25 Hoogsteen/Hoogsteen trans y
13 18 23 Watson-Crick/O2' ?
14 19 24 Hoogsteen/Watson-Crick trans
15 19 32 Sugar/O2' ?
16 20 23 O2'/Bifurcated trans
17 21 22 Watson-Crick/Watson-Crick cis
18 29 30 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters