Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'1-3-23-10-Multiloop pdb2v471A.m1756-1892
Source: [PDB-id:chain] 2v47: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 2 OF 4). THIS FILE CONTAINS THE 50S SUBUNIT FOR MOLECULE 1.
Source: Compound 23S RIBOSOMAL RNA
Source: Resolution 3.8 ANGSTROMS.
Position (1759, 1889), (1761, 1822), (1826, 1838), (1862, 1878)
Primary structure ('_': anchors) _U_-_GGC_-_GUCCUAAGGUAGCGAAAUUCCUU_-_CUGCACGAAA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		3: C2'-exo, 17: C2'-endo, 18: C2'-endo, 24: C2'-endo, 26: C2'-endo, 27: C2'-endo, 28: C2'-endo, 31: C2'-endo, 32: C2'-endo, 35: C4'-exo, 36: C2'-exo, 37: C2'-endo, 39: C2'-endo, 43: O4'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		17: syn, 24: syn, 25: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 3 19 →
2 4 18 ↑
3 5 6 ↑
4 5 17 →
5 6 7 ↑
6 8 10 →
7 9 10 ↑
8 10 11 ↑
9 15 16 ↑
10 18 41 &larr
11 20 21 ↑
12 20 42 →
13 21 22 ↑
14 22 23 ↑
15 23 35 &larr
16 23 37 →
17 24 33 →
18 25 27 &larr
19 29 30 ↑
20 29 38 →
21 30 31 &larr
22 37 40 ↑
23 38 39 &larr
24 40 41 ↑
25 43 45 →
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 42 Watson-Crick/O2' trans y
2 1 45 Watson-Crick/Watson-Crick cis
3 2 43 Hoogsteen/Watson-Crick cis
4 3 4 Watson-Crick/Watson-Crick cis
5 4 42 O2'/Bifurcated ?
6 5 12 Watson-Crick/Watson-Crick cis
7 8 9 Watson-Crick/Watson-Crick cis
8 13 17 Watson-Crick/Watson-Crick trans
9 14 16 Hoogsteen/O2' ?
10 14 17 O2'/Watson-Crick ?
11 18 42 O2'/Bifurcated ?
12 19 42 Hoogsteen/Watson-Crick trans
13 20 41 Sugar/Hoogsteen trans y
14 21 40 Watson-Crick/Watson-Crick cis
15 22 37 Watson-Crick/Watson-Crick cis
16 24 31 Watson-Crick/Hoogsteen cis y
17 24 33 Hoogsteen/O2' ?
18 24 35 Watson-Crick/O2' ?
19 25 27 O2'/Hoogsteen ?
20 29 38 O2'/Bifurcated ?
21 33 34 Watson-Crick/Watson-Crick cis
22 42 45 Sugar/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters