Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'6-4-0-18-Multiloop pdb2b9p1A.m45-168
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 (46, 167), (53, 114), (119, 128), (129, 148)
Primary structure ('_': anchors) _GAUGAA_-_GAAU_-__-_ACCGCGCUUUUGCGCGGG_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		5: O4'-exo, 6: C2'-exo, 13: O4'-endo, 14: C2'-exo, 15: C2'-exo, 16: C2'-exo, 17: C4'-exo, 21: C2'-exo, 25: C2'-exo, 27: C4'-exo, 28: O4'-endo, 29: C2'-exo, 31: C2'-exo, 35: C2'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		4: syn, 11: syn, 26: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 6 7 ↑
3 7 8 ↑
4 9 10 ↑
5 10 12 &larr
6 13 19 →
7 17 18 ↑
8 19 20 ↑
9 20 21 ↑
10 23 24 ↑
11 31 32 ↑
12 32 33 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 36 Watson-Crick/Watson-Crick cis
2 2 35 O2'/Bifurcated ?
3 3 5 C/O2' ?
4 3 11 Hoogsteen/Bifurcated trans y
5 3 13 Watson-Crick/Watson-Crick cis y
6 5 11 Bifurcated/O2' ?
7 5 12 Bifurcated/O2' ?
8 6 10 O2'/Bifurcated ?
9 6 36 O2'/Watson-Crick ?
10 7 10 Sugar/Hoogsteen trans
11 8 9 Watson-Crick/Watson-Crick cis
12 11 36 O2'/Sugar ?
13 13 34 Watson-Crick/Bifurcated trans
14 14 15 Watson-Crick/Watson-Crick cis
15 16 17 Watson-Crick/Watson-Crick cis
16 17 18 C/O2' ?
17 24 30 Watson-Crick/Watson-Crick cis y
18 26 30 Watson-Crick/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters