Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'9-8-11-34-Multiloop pdb1z5812.m1960-2488
Source: [PDB-id:chain] 1z58:2 (&rarr PDB)
Source: Information CRYSTAL STRUCTURE OF A COMPLEX OF THE RIBOSOME LARGE SUBUNIT WITH RAPAMYCIN
Source: Compound 23S RIBOSOMAL RNA
Source: Resolution 3.80 ANGSTROMS.
Position (1962, 2486), (1972, 2317), (2326, 2367), (2379, 2451)
Primary structure ('_': anchors) _CGAAAAGAC_-_GAUAACAG_-_ACCUCGAUGUC_-_GGGUUCAGAACGUCGUGAGACAGUUCGGUCUCUA_
Bases with unusual sugar puckers
(Standard: C3'-endo)
None
Bases with unusual glycosidic-bond configuration
(Standard: anti)
None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 3 4
2 4 5
3 7 28
4 8 10
5 10 11
6 12 27 &larr
7 16 17
8 18 19
9 20 21
10 22 23
11 25 26
12 33 34
13 33 38
14 34 37
15 37 38
16 38 39
17 41 42
18 43 44
19 43 62
20 44 45
21 45 46
22 46 47
23 47 48
24 47 58
25 49 50
26 50 54
27 52 53
28 54 55
29 55 56
30 58 59
31 59 60
32 61 62
33 62 63
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 70 Watson-Crick/Watson-Crick cis
2 4 66 Watson-Crick/Watson-Crick cis
3 8 17 Watson-Crick/Watson-Crick cis
4 8 27 O2'/Hoogsteen ?
5 9 11 Bifurcated/O2' ?
6 10 16 Watson-Crick/Watson-Crick cis y
7 11 12 Watson-Crick/Watson-Crick cis
8 12 14 Hoogsteen/O2' ?
9 13 16 O2'/Sugar ?
10 16 27 Watson-Crick/Hoogsteen trans y
11 19 26 Watson-Crick/Watson-Crick cis
12 20 24 Hoogsteen/Watson-Crick cis y
13 21 22 Watson-Crick/Watson-Crick cis
14 34 35 Watson-Crick/Watson-Crick cis
15 36 39 Watson-Crick/Sugar trans y
16 42 62 Watson-Crick/Hoogsteen trans y
17 42 63 O2'/Bifurcated ?
18 43 61 Watson-Crick/Watson-Crick cis y
19 49 54 Watson-Crick/Watson-Crick cis
20 50 52 Hoogsteen/O2' ?
21 50 53 O2'/Bifurcated ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters