Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'4-10-13-2-8-Multiloop pdb2b9n1A.m602-1285
Source: [PDB-id:chain] 2b9n:A (&rarr PDB)
Source: Information 50S RIBOSOMAL SUBUNIT FROM A CRYSTAL STRUCTURE OF RELEASE FACTOR RF2, TRNAS AND MRNA BOUND TO THE RIBOSOME. THIS FILE CONTAINS THE 50S SUBUNIT FROM A CRYSTAL STRUCTURE OF RELEASE FACTOR RF1, TRNAS AND MRNA BOUND TO THE RIBOSOME AND IS DESCRIBED IN REMARK 400.
Source: Compound 23S RIBOSOMAL RNA
Source: Resolution 6.76 ANGSTROMS.
Position (607, 1280), (612, 693), (704, 823), (837, 1219), (1222, 1271)
Primary structure ('_': anchors) _GACU_-_GACCCGAAAC_-_GAGAUAGCUGGUU_-_CG_-_GUGCGAAU_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		4: O4'-endo, 8: O4'-endo, 9: C2'-exo, 10: C4'-exo, 14: C4'-exo, 15: C4'-exo, 18: C2'-exo, 21: O4'-endo, 22: O4'-endo, 23: C2'-exo, 25: C4'-exo, 26: O4'-exo, 32: C1'-endo, 34: C2'-exo, 36: C2'-exo, 38: O4'-endo, 39: O4'-endo, 40: C2'-exo, 41: O4'-endo, 42: C4'-exo, 43: C1'-endo, 44: O4'-endo, 45: C1'-endo, 47: C2'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		15: syn, 26: syn, 42: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 3 45 →
3 4 10 →
4 7 9 &larr
5 8 9 ↑
6 8 22 ↓
7 13 25 &larr
8 14 15 &larr
9 14 25 →
10 16 17 ↑
11 17 18 ↑
12 19 20 ↑
13 20 21 &larr
14 23 24 ↑
15 29 30 ↑
16 30 31 ↑
17 33 41 ↓
18 34 35 ↑
19 35 36 ↑
20 36 37 ↑
21 36 41 →
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 47 Watson-Crick/Watson-Crick cis
2 2 45 Hoogsteen/Sugar trans
3 3 30 O2'/Bifurcated trans y
4 3 42 Watson-Crick/Hoogsteen trans y
5 6 7 Watson-Crick/Watson-Crick cis
6 7 9 Bifurcated/O2' ?
7 8 22 Bifurcated/O2' ?
8 11 29 Watson-Crick/Watson-Crick cis
9 14 25 Bifurcated/O2' ?
10 18 19 Watson-Crick/Watson-Crick cis
11 25 27 Watson-Crick/O2' ?
12 26 27 Bifurcated/O2' ?
13 30 45 Sugar/O2' ?
14 31 44 Hoogsteen/O2' ?
15 32 44 Bifurcated/O2' ?
16 33 34 Watson-Crick/Watson-Crick cis
17 35 41 Watson-Crick/Watson-Crick cis
18 37 38 Watson-Crick/Watson-Crick cis y
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters