Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'0-4-22-3-6-Multiloop pdb2v491A.m38-450
Source: [PDB-id:chain] 2v49:A (&rarr PDB)
Source: Information STRUCTURE OF THE RIBOSOME RECYCLING FACTOR BOUND TO THE THERMUS THERMOPHILUS 70S RIBOSOME WITH MRNA, ASL-PHE AND TRNA-FMET (PART 4 OF 4). THIS FILE CONTAINS THE 50S SUBUNIT OF MOLECULE 2.
Source: Compound 23S RIBOSOMAL RNA
Source: Resolution 3.8 ANGSTROMS.
Position (39, 449), (40, 161), (166, 194), (217, 244), (248, 442)
Primary structure ('_': anchors) __-_GAAC_-_AGGAGAGGAAAGAGAAAUCGAC_-_CCA_-_UAAGUA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		11: C4'-exo, 12: C2'-endo, 19: C2'-endo, 23: C2'-endo, 24: C2'-endo, 29: C2'-endo, 36: C2'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		19: syn, 36: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 3 4 ↑
2 5 6 ↑
3 6 7 ↑
4 9 10 ↑
5 10 11 ↑
6 11 12 ↑
7 13 14 ↑
8 13 44 →
9 14 15 ↑
10 15 16 ↑
11 16 17 ↑
12 17 39 &larr
13 18 30 →
14 18 37 ↑
15 19 21 ↑
16 21 22 ↑
17 22 23 ↑
18 25 27 ↑
19 28 29 ↑
20 30 31 ↑
21 31 32 ↑
22 33 34 ↑
23 34 35 ↑
24 36 40 →
25 38 39 ↑
26 40 41 ↑
27 41 42 ↑
28 44 45 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 12 O2'/Hoogsteen ?
2 1 45 Watson-Crick/Watson-Crick cis
3 2 3 Watson-Crick/Watson-Crick cis
4 4 5 Hoogsteen/O2' ?
5 4 12 Hoogsteen/Bifurcated trans y
6 6 12 Watson-Crick/Watson-Crick cis
7 6 45 O2'/Sugar cis y
8 7 11 Watson-Crick/Watson-Crick cis
9 8 9 Watson-Crick/Watson-Crick cis
10 11 13 O2'/Sugar ?
11 12 44 Watson-Crick/Sugar trans y
12 13 43 Watson-Crick/Hoogsteen trans
13 16 31 O2'/Sugar cis y
14 16 42 Watson-Crick/Watson-Crick cis y
15 17 30 Sugar/O2' cis y
16 17 40 O2'/Watson-Crick trans y
17 18 36 O2'/Watson-Crick ?
18 18 39 Watson-Crick/Hoogsteen trans
19 19 29 Sugar/Hoogsteen trans
20 21 28 Watson-Crick/Watson-Crick cis
21 23 24 Hoogsteen/O2' ?
22 23 25 Watson-Crick/Sugar cis y
23 30 41 Watson-Crick/Watson-Crick trans
24 31 42 Watson-Crick/Watson-Crick trans
25 32 33 Watson-Crick/Watson-Crick cis
26 33 42 O2'/Sugar ?
27 34 41 Sugar/O2' ?
28 34 42 Sugar/Watson-Crick cis y
29 36 40 Bifurcated/O2' ?
30 37 38 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters