Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'9-17-21-7-8-Multiloop pdb2o441A.m1969-2509
Source: [PDB-id:chain] 2o44:A (&rarr PDB)
Source: Information STRUCTURE OF 23S RRNA OF THE LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS IN COMPLEX WITH THE MACROLIDE JOSAMYCIN
Source: Compound 23S RRNA
Source: Resolution 3.30 ANGSTROMS.
Position (1971, 2507), (1981, 2338), (2356, 2378), (2400, 2472), (2480, 2498)
Primary structure ('_': anchors) _CGAAAAGAC_-_GAUAACAGGCUGAUCUC_-_GAGGUUUGGCACCUCGAUGUC_-_GGGUUCA_-_GGUCUCUA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		7: O4'-endo, 8: C4'-exo, 9: C4'-exo, 13: C4'-exo, 14: C4'-exo, 15: C4'-exo, 24: C4'-exo, 42: O4'-endo, 43: C2'-exo, 46: C4'-exo, 58: C2'-exo, 59: C2'-exo, 66: C4'-exo, 67: C4'-exo, 70: C4'-exo, 71: O4'-endo, 72: C2'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		9: syn, 48: syn, 55: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 3 4 ↑
2 4 5 ↑
3 6 48 ↑
4 7 47 →
5 8 48 ↓
6 10 11 ↑
7 12 46 &larr
8 13 45 &larr
9 13 46 →
10 16 17 ↑
11 20 21 ↑
12 21 22 ↑
13 24 35 &larr
14 25 26 ↑
15 27 28 ↑
16 29 30 ↑
17 31 32 ↑
18 32 33 ↑
19 33 34 ↑
20 34 35 ↑
21 39 40 ↑
22 40 41 ↑
23 41 42 ↑
24 44 45 ↑
25 52 53 ↑
26 52 57 →
27 53 56 →
28 54 55 &larr
29 55 67 ↓
30 56 57 ↑
31 57 58 ↑
32 60 61 ↑
33 62 64 →
34 64 65 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 72 Watson-Crick/Watson-Crick cis
2 4 68 Watson-Crick/Watson-Crick cis
3 10 16 Watson-Crick/Watson-Crick cis y
4 11 12 Watson-Crick/Watson-Crick cis
5 13 16 O2'/Bifurcated ?
6 13 18 Hoogsteen/Watson-Crick cis y
7 16 42 C/O2' ?
8 17 42 Bifurcated/O2' ?
9 18 49 Watson-Crick/Watson-Crick cis y
10 19 45 Watson-Crick/Watson-Crick cis
11 20 43 Watson-Crick/Watson-Crick cis
12 22 40 Watson-Crick/Watson-Crick cis
13 24 25 Hoogsteen/O2' ?
14 25 38 Watson-Crick/Watson-Crick cis y
15 26 37 Watson-Crick/Watson-Crick cis y
16 26 38 Watson-Crick/Watson-Crick cis y
17 27 34 Watson-Crick/Watson-Crick cis
18 30 31 Watson-Crick/Watson-Crick cis
19 35 37 Hoogsteen/Sugar cis y
20 50 67 Watson-Crick/Watson-Crick trans y
21 51 59 Watson-Crick/Watson-Crick trans y
22 52 56 Watson-Crick/Watson-Crick cis
23 53 54 Watson-Crick/Watson-Crick cis
24 62 63 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters