Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'0-4-11-3-3-6-Multiloop pdb1njn10.m43-397
Source: [PDB-id:chain] 1njn:0 (&rarr PDB)
Source: Information THE CRYSTAL STRUCTURE OF THE 50S LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS COMPLEXED WITH THE ANTIBIOTIC SPARSOMYCIN
Source: Compound 23S RIBOSOMAL RNA
Source: Resolution 3.70 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 22 23 ↑
15 27 28 ↑
16 28 29 ↑
17 32 33 ↑
18 34 35 ↑
19 38 39 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 13 O2'/Hoogsteen ?
2 1 39 Watson-Crick/Watson-Crick cis
3 2 3 Watson-Crick/Watson-Crick cis
4 4 12 Watson-Crick/Watson-Crick trans y
5 6 39 O2'/Sugar ?
6 7 11 Watson-Crick/Watson-Crick cis
7 8 9 Watson-Crick/Watson-Crick cis
8 11 13 O2'/Sugar ?
9 17 24 Sugar/O2' cis y
10 17 34 O2'/Bifurcated ?
11 19 23 O2'/Bifurcated ?
12 21 22 Watson-Crick/Watson-Crick cis
13 25 36 Watson-Crick/Watson-Crick cis y
14 26 27 Watson-Crick/Watson-Crick cis
15 27 36 O2'/Sugar ?
16 28 35 Sugar/O2' ?
17 30 33 O2'/Bifurcated ?
18 30 34 Hoogsteen/Hoogsteen trans y
19 31 32 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters