Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'0-4-11-3-3-6-Multiloop pdb1pny10.m43-397
Source: [PDB-id:chain] 1pny:0 (&rarr PDB)
Source: Information CRYSTAL STRUCTURE OF THE WILD TYPE RIBOSOME FROM E. COLI, 50S SUBUNIT OF 70S RIBOSOME. THIS FILE, 1PNY, CONTAINS ONLY MOLECULES OF THE 50S RIBOSOMAL SUBUNIT. THE 30S SUBUNIT IS IN THE PDB FILE 1PNX.
Source: Compound 23S RIBOSOMAL RNA
Source: Resolution 9.50 ANGSTROMS.
Position (44, 396), (45, 156), (161, 189), (201, 208), (212, 239), (243, 389)
Primary structure ('_': anchors) __-_GAAC_-_AGGAGAAGAAA_-_GAU_-_UCA_-_UAAAUA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		None
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 3 4 ↑
2 5 6 ↑
3 6 7 ↑
4 9 10 ↑
5 10 11 ↑
6 13 14 ↑
7 13 38 →
8 14 15 ↑
9 15 16 ↑
10 16 17 ↑
11 17 33 &larr
12 18 24 →
13 18 31 ↑
14 19 21 ↑
15 22 23 ↑
16 27 28 ↑
17 28 29 ↑
18 32 33 ↑
19 34 35 ↑
20 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 7 11 Watson-Crick/Watson-Crick cis
4 8 9 Watson-Crick/Watson-Crick cis
5 11 13 O2'/Sugar ?
6 17 24 Sugar/O2' cis y
7 17 34 O2'/Bifurcated ?
8 18 30 O2'/Watson-Crick ?
9 19 23 O2'/Bifurcated ?
10 21 22 Watson-Crick/Watson-Crick cis
11 25 36 Watson-Crick/Watson-Crick trans y
12 26 27 Watson-Crick/Watson-Crick cis
13 27 36 O2'/Sugar ?
14 28 35 Sugar/O2' ?
15 30 33 O2'/Bifurcated ?
16 31 32 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters