Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'18-2-4-3-4-8-Multiloop pdb2ogn10.m779-1139
Source: [PDB-id:chain] 2ogn:0 (&rarr PDB)
Source: Information THE CRYSTAL STRUCTURE OF THE LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS COMPLEXED WITH THE PLEUROMUTILIN DERIVATIVE SB-280080
Source: Compound 23S RIBOSOMAL RNA
Source: Resolution 3.56 ANGSTROMS.
Position (780, 1138), (799, 888), (891, 916), (921, 932), (936, 1108), (1113, 1129)
Primary structure ('_': anchors) _GAAAUGUAUUGAGGUACA_-_GA_-_GAGA_-_AGA_-_AUUC_-_GUCUGGUA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		3: C2'-exo, 7: C2'-exo, 11: C4'-exo, 12: C4'-exo, 13: C4'-exo, 17: C2'-exo, 23: C4'-exo, 26: C4'-exo, 33: O4'-endo, 43: C4'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		12: syn, 22: syn, 28: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 48 &larr
3 2 51 →
4 3 50 →
5 6 7 ↑
6 7 8 ↑
7 7 19 →
8 9 10 ↑
9 12 13 →
10 15 16 ↑
11 18 19 ↑
12 19 20 ↑
13 25 26 ↑
14 27 49 →
15 28 33 ↓
16 28 47 ↑
17 29 34 →
18 31 32 ↑
19 36 37 ↑
20 37 38 ↑
21 39 40 ↑
22 42 43 ↑
23 43 44 ↑
24 44 45 ↑
25 47 48 ↑
26 50 51 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 51 Watson-Crick/Watson-Crick cis
2 2 46 Watson-Crick/O2' ?
3 2 49 O2'/Watson-Crick ?
4 2 50 Hoogsteen/Sugar trans
5 3 48 Watson-Crick/O2' ?
6 3 49 Watson-Crick/Hoogsteen trans y
7 4 21 O2'/C ?
8 5 22 O2'/Sugar ?
9 5 26 O2'/Bifurcated ?
10 6 19 Watson-Crick/Watson-Crick cis
11 7 18 Watson-Crick/Bifurcated cis
12 8 17 Watson-Crick/Watson-Crick cis y
13 12 13 C/O2' ?
14 17 18 Hoogsteen/Hoogsteen cis y
15 20 21 Watson-Crick/Watson-Crick cis y
16 24 25 Watson-Crick/Watson-Crick cis
17 25 28 Bifurcated/O2' ?
18 25 33 Watson-Crick/O2' ?
19 28 34 Bifurcated/O2' ?
20 28 47 Bifurcated/O2' ?
21 30 31 Watson-Crick/Watson-Crick cis
22 33 34 Hoogsteen/O2' ?
23 35 36 Watson-Crick/Watson-Crick cis
24 41 42 Watson-Crick/Watson-Crick cis
25 46 48 Hoogsteen/Hoogsteen cis y
26 48 49 Hoogsteen/Watson-Crick cis y
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters