Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'0-4-11-3-3-6-Multiloop pdb3bbx1B.m44-434
Source: [PDB-id:chain] 3bbx:B (&rarr PDB)
Source: Information THE HSP15 PROTEIN FITTED INTO THE LOW RESOLUTION CRYO-EM MAP OF THE 50S.NC-TRNA.HSP15 COMPLEX
Source: Compound 23S RIBOSOMAL RNA
Source: Resolution 0.00 ANGSTROMS.
Position (45, 433), (46, 179), (184, 212), (224, 231), (235, 262), (266, 426)
Primary structure ('_': anchors) __-_GAAC_-_AGGAAAAGAAA_-_GAU_-_GCA_-_UAAAUA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		12: C2'-endo, 18: C2'-endo, 19: C2'-endo, 23: C2'-endo, 30: C4'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		19: syn, 30: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 6 ↑
2 3 4 ↑
3 5 6 ↑
4 6 7 ↑
5 9 10 ↑
6 10 11 ↑
7 11 12 ↑
8 13 14 ↑
9 13 38 →
10 14 15 ↑
11 14 37 →
12 15 16 ↑
13 16 17 ↑
14 18 24 →
15 18 31 ↑
16 19 21 ↑
17 22 23 ↑
18 24 25 ↑
19 25 26 ↑
20 27 28 ↑
21 28 29 ↑
22 30 34 →
23 32 33 ↑
24 34 35 ↑
25 38 39 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 5 Bifurcated/O2' trans y
2 1 39 Watson-Crick/Watson-Crick cis
3 2 3 Watson-Crick/Watson-Crick cis
4 6 12 Watson-Crick/Watson-Crick cis
5 6 39 O2'/C ?
6 7 11 Watson-Crick/Watson-Crick cis
7 7 38 Hoogsteen/O2' ?
8 8 9 Watson-Crick/Watson-Crick cis
9 8 14 Sugar/O2' ?
10 11 13 O2'/Sugar cis y
11 12 38 Watson-Crick/Watson-Crick trans y
12 13 36 O2'/Hoogsteen ?
13 13 37 Hoogsteen/Hoogsteen trans
14 14 36 Hoogsteen/Hoogsteen trans y
15 17 24 Sugar/O2' ?
16 17 25 Hoogsteen/O2' ?
17 17 34 O2'/Watson-Crick ?
18 17 35 Hoogsteen/Sugar trans
19 18 30 Hoogsteen/Watson-Crick cis y
20 18 31 Hoogsteen/O2' ?
21 18 33 Watson-Crick/Hoogsteen trans
22 19 23 Sugar/Hoogsteen trans
23 21 22 Watson-Crick/Watson-Crick cis
24 24 35 Watson-Crick/Watson-Crick trans
25 26 27 Watson-Crick/Watson-Crick cis
26 26 36 Sugar/O2' ?
27 28 35 Sugar/O2' ?
28 30 33 O2'/Bifurcated ?
29 31 32 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters