Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'0-4-22-3-6-Multiloop pdb2b9p1A.m43-461
Source: [PDB-id:chain] 2b9p:A (&rarr PDB)
Source: Information 50S RIBOSOMAL SUBUNIT FROM A CRYSTAL STRUCTURE OF THE RIBOSOME IN COMPLEX WITH TRNAS AND MRNA WITH A STOP CODON IN THE A-SITE. THIS FILE CONTAINS THE 50S SUBUNIT FROM A CRYSTAL STRUCTURE OF THE RIBOSOME IN COMPLEX WITH TRNAS AND MRNA WITH A STOP CODON IN THE A-SITE AND IS DESCRIBED IN REMARK 400.
Source: Compound 23S RIBOSOMAL RNA
Source: Resolution 6.46 ANGSTROMS.
Position (44, 460), (45, 168), (173, 201), (224, 251), (255, 453)
Primary structure ('_': anchors) __-_GAAC_-_AGGAGAGGAAAGAGAAAUCGAC_-_CCA_-_UAAGUA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		3: C2'-exo, 5: C2'-exo, 6: C4'-exo, 8: C4'-exo, 12: C4'-exo, 13: C2'-exo, 14: C2'-exo, 15: C4'-exo, 17: C4'-exo, 18: C2'-exo, 20: C4'-exo, 24: C2'-exo, 26: C2'-exo, 29: C1'-endo, 36: C1'-exo, 41: C2'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 3 4 ↑
2 5 6 ↑
3 6 7 ↑
4 10 11 ↑
5 11 12 ↑
6 13 14 ↑
7 13 44 →
8 14 15 ↑
9 16 17 ↑
10 17 39 &larr
11 19 21 ↑
12 21 22 ↑
13 22 23 ↑
14 27 28 ↑
15 30 31 ↑
16 31 32 ↑
17 33 34 ↑
18 34 35 ↑
19 38 39 ↑
20 40 41 ↑
21 41 42 ↑
22 44 45 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 45 Watson-Crick/Watson-Crick cis
2 2 3 Watson-Crick/Watson-Crick cis y
3 6 12 Watson-Crick/Watson-Crick cis
4 6 45 O2'/Sugar ?
5 7 44 Sugar/O2' ?
6 8 9 Watson-Crick/Watson-Crick cis
7 8 14 Sugar/O2' ?
8 10 14 O2'/Sugar ?
9 12 44 Watson-Crick/Sugar trans y
10 15 32 O2'/Bifurcated ?
11 16 31 Sugar/Sugar cis y
12 16 42 Watson-Crick/Watson-Crick cis y
13 17 30 Sugar/O2' ?
14 18 36 O2'/Watson-Crick ?
15 18 39 Watson-Crick/Hoogsteen trans y
16 19 29 O2'/Watson-Crick trans y
17 21 28 Watson-Crick/Watson-Crick cis y
18 21 29 Sugar/Watson-Crick cis y
19 25 27 Sugar/Hoogsteen cis y
20 30 41 Watson-Crick/Watson-Crick trans y
21 31 42 Watson-Crick/Watson-Crick trans y
22 32 33 Watson-Crick/Watson-Crick cis y
23 33 42 O2'/Sugar ?
24 34 41 Sugar/O2' ?
25 36 39 O2'/Bifurcated ?
26 37 38 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters