Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'20-5-4-3-3-7-Multiloop pdb1pnu10.m775-1159
Source: [PDB-id:chain] 1pnu:0 (&rarr PDB)
Source: Information CRYSTAL STRUCTURE OF A STREPTOMYCIN DEPENDENT RIBOSOME FROM ESCHERICHIA COLI, 50S SUBUNIT OF 70S RIBOSOME. THIS FILE, 1PNU, CONTAINS ONLY MOLECULES OF THE 50S RIBOSOMAL SUBUNIT. THE 30S SUBUNIT, MRNA, P-SITE TRNA, AND A-SITE TRNA ARE IN THE PDB FILE 1PNS.
Source: Compound 23S RIBOSOMAL RNA
Source: Resolution 8.70 ANGSTROMS.
Position (780, 1154), (801, 901), (907, 932), (937, 948), (952, 1124), (1128, 1146)
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 17 18 ↑
12 18 19 ↑
13 19 20 ↑
14 20 21 ↑
15 22 24 →
16 24 25 ↑
17 25 26 ↑
18 26 27 ↑
19 30 31 ↑
20 33 50 ↑
21 34 35 ↑
22 36 37 ↑
23 41 42 ↑
24 42 43 ↑
25 43 44 ↑
26 46 47 ↑
27 47 48 ↑
28 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 4 26 O2'/Sugar ?
6 4 32 O2'/Bifurcated ?
7 5 27 O2'/Sugar ?
8 5 31 O2'/Bifurcated trans y
9 6 29 Hoogsteen/O2' ?
10 7 18 Watson-Crick/Watson-Crick cis
11 10 15 Watson-Crick/Watson-Crick cis
12 11 12 Bifurcated/O2' ?
13 16 27 Hoogsteen/O2' ?
14 17 27 Watson-Crick/O2' ?
15 21 25 Watson-Crick/Watson-Crick cis
16 22 23 Watson-Crick/Watson-Crick cis
17 25 53 Sugar/O2' ?
18 29 30 Watson-Crick/Watson-Crick cis
19 30 33 Bifurcated/O2' ?
20 30 38 Bifurcated/O2' ?
21 31 33 Bifurcated/O2' ?
22 32 50 Bifurcated/O2' cis y
23 34 38 O2'/Bifurcated ?
24 35 36 Watson-Crick/Watson-Crick cis
25 39 50 O2'/Hoogsteen ?
26 40 41 Watson-Crick/Watson-Crick cis
27 45 46 Watson-Crick/Watson-Crick cis y
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters