Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'7-3-3-21-0-4-Multiloop pdb2b9p1A.m837-1219
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 (842, 1214), (850, 857), (861, 966), (970, 993), (1015, 1188), (1189, 1209)
Primary structure ('_': anchors) _GAAAUGA_-_UCA_-_GAG_-_CGAGCGCGGGAACAACCGAGA_-__-_GGUA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		3: C2'-exo, 6: C4'-exo, 7: C4'-exo, 10: C4'-exo, 16: C2'-exo, 17: C4'-exo, 19: C2'-exo, 21: C4'-exo, 23: C4'-exo, 24: O4'-endo, 25: C4'-exo, 26: C1'-endo, 27: C4'-exo, 33: C1'-exo, 35: C4'-exo, 40: O4'-endo, 41: C2'-exo, 42: C2'-exo, 44: C4'-exo, 46: C2'-exo, 47: C2'-exo, 48: C2'-exo, 49: C2'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		23: syn, 24: syn, 34: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 47 &larr
3 3 4 ↑
4 3 49 →
5 4 5 ↑
6 5 18 ↑
7 7 8 ↑
8 7 13 →
9 8 9 ↑
10 10 11 ↑
11 11 12 ↑
12 13 14 ↑
13 18 19 ↑
14 26 27 ↑
15 26 41 →
16 28 29 ↑
17 28 38 →
18 29 30 ↑
19 30 33 &larr
20 31 32 ↑
21 38 39 ↑
22 42 44 →
23 43 44 ↑
24 49 50 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 50 Watson-Crick/Watson-Crick cis
2 2 48 O2'/Watson-Crick ?
3 3 47 Bifurcated/O2' ?
4 3 48 Watson-Crick/Hoogsteen trans
5 5 22 O2'/Bifurcated ?
6 6 13 Watson-Crick/Bifurcated cis y
7 7 12 Watson-Crick/Watson-Crick cis
8 9 10 Watson-Crick/Watson-Crick cis
9 10 16 Bifurcated/O2' ?
10 14 15 Watson-Crick/Watson-Crick cis y
11 19 20 Watson-Crick/Watson-Crick cis
12 21 25 Watson-Crick/O2' ?
13 22 24 O2'/Hoogsteen ?
14 24 34 O2'/Bifurcated ?
15 24 48 Hoogsteen/O2' ?
16 25 46 Bifurcated/O2' ?
17 27 38 Watson-Crick/Watson-Crick cis y
18 29 36 Watson-Crick/Watson-Crick cis
19 30 32 O2'/Hoogsteen ?
20 32 33 Bifurcated/O2' ?
21 34 35 O2'/Hoogsteen ?
22 41 46 O2'/Watson-Crick trans y
23 42 43 Watson-Crick/Watson-Crick cis
24 44 45 Watson-Crick/Watson-Crick cis
25 49 50 Hoogsteen/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters