Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'4-0-2-4-3-3-7-Multiloop pdb2zjr1X.m753-1118
Source: [PDB-id:chain] 2zjr:X (&rarr PDB)
Source: Information REFINED NATIVE STRUCTURE OF THE LARGE RIBOSOMAL SUBUNIT (50S) FROM DEINOCOCCUS RADIODURANS
Source: Compound RIBOSOMAL 23S RNA
Source: Resolution 2.91 ANGSTROMS.
Position (758, 1113), (763, 776), (777, 863), (866, 891), (896, 907), (911, 1083), (1087, 1105)
Primary structure ('_': anchors) _GAAA_-__-_GA_-_GAGA_-_AGA_-_AUU_-_UCUGGUA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		3: C2'-exo, 10: C2'-exo, 11: O4'-endo, 15: O4'-endo, 16: O4'-endo, 21: O4'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 34 &larr
3 3 4 ↑
4 3 36 →
5 4 5 ↑
6 5 12 ↑
7 7 8 ↑
8 13 14 ↑
9 14 15 &larr
10 16 21 &larr
11 16 33 →
12 17 22 →
13 19 20 ↑
14 23 32 ↓
15 25 26 ↑
16 27 28 ↑
17 29 30 ↑
18 30 31 ↑
19 31 32 ↑
20 33 34 ↑
21 36 37 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 37 Watson-Crick/Watson-Crick cis
2 2 35 O2'/Bifurcated ?
3 2 36 Bifurcated/O2' ?
4 3 34 Bifurcated/O2' ?
5 3 35 Watson-Crick/Hoogsteen trans
6 4 9 O2'/Sugar ?
7 4 15 Hoogsteen/Hoogsteen trans
8 5 14 Sugar/Hoogsteen trans
9 6 7 Watson-Crick/Watson-Crick cis
10 8 9 Watson-Crick/Watson-Crick cis
11 12 13 Watson-Crick/Watson-Crick cis
12 13 16 Hoogsteen/O2' ?
13 13 21 Watson-Crick/O2' ?
14 16 17 Hoogsteen/O2' ?
15 16 21 O2'/Bifurcated ?
16 17 21 Sugar/Hoogsteen trans
17 18 19 Watson-Crick/Watson-Crick cis
18 22 33 O2'/Bifurcated ?
19 23 24 Watson-Crick/Watson-Crick cis
20 25 32 Watson-Crick/Watson-Crick cis
21 27 30 Watson-Crick/Watson-Crick cis
22 28 29 Watson-Crick/Watson-Crick cis
23 34 35 Hoogsteen/Sugar cis y
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters