Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'20-5-4-3-3-7-Multiloop pdb1njm10.m775-1143
Source: [PDB-id:chain] 1njm:0 (&rarr PDB)
Source: Information THE CRYSTAL STRUCTURE OF THE 50S LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS COMPLEXED WITH A TRNA ACCEPTOR STEM MIMIC (ASM) AND THE ANTIBIOTIC SPARSOMYCIN
Source: Compound 23S RIBOSOMAL RNA
Source: Resolution 3.60 ANGSTROMS.
Position (780, 1138), (801, 885), (891, 916), (921, 932), (936, 1108), (1112, 1130)
Primary structure ('_': anchors) _GAAAUGUAUUGAGGUACAGC_-_AGUGA_-_GAGA_-_AGA_-_AUU_-_UCUGGUA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		None
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		12: syn, 33: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 51 &larr
3 3 4 ↑
4 3 53 →
5 4 5 ↑
6 5 29 ↑
7 7 8 ↑
8 8 9 ↑
9 9 10 ↑
10 15 16 ↑
11 16 27 &larr
12 17 18 ↑
13 18 19 ↑
14 19 20 ↑
15 20 21 ↑
16 22 24 →
17 24 25 ↑
18 25 26 ↑
19 26 27 ↑
20 30 31 ↑
21 33 50 ↑
22 34 35 ↑
23 36 37 ↑
24 41 42 ↑
25 42 43 ↑
26 43 44 ↑
27 46 47 ↑
28 47 48 ↑
29 50 51 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 54 Watson-Crick/Watson-Crick cis
2 2 52 O2'/Watson-Crick ?
3 3 25 O2'/Watson-Crick ?
4 3 51 Watson-Crick/O2' ?
5 3 52 Watson-Crick/Hoogsteen trans y
6 4 26 O2'/Sugar ?
7 4 32 O2'/Bifurcated ?
8 5 27 O2'/Sugar ?
9 5 31 O2'/Bifurcated trans
10 6 29 Hoogsteen/O2' ?
11 7 18 Watson-Crick/Watson-Crick cis y
12 10 15 Watson-Crick/Watson-Crick cis
13 11 12 Hoogsteen/O2' ?
14 16 27 Hoogsteen/O2' ?
15 17 27 Watson-Crick/O2' ?
16 21 25 Watson-Crick/Watson-Crick cis
17 22 23 Watson-Crick/Watson-Crick cis
18 25 53 Sugar/O2' ?
19 29 30 Watson-Crick/Watson-Crick cis
20 30 33 Bifurcated/O2' ?
21 30 38 Bifurcated/O2' ?
22 31 33 Bifurcated/O2' ?
23 32 50 Bifurcated/O2' cis y
24 34 38 O2'/Bifurcated ?
25 35 36 Watson-Crick/Watson-Crick cis
26 39 50 O2'/Hoogsteen ?
27 40 41 Watson-Crick/Watson-Crick cis
28 45 46 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters