Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'4-2-2-2-8-Multiloop pdb2j011A.m589-1211
Source: [PDB-id:chain] 2j01:A (&rarr PDB)
Source: Information STRUCTURE OF THE THERMUS THERMOPHILUS 70S RIBOSOME COMPLEXED WITH MRNA, TRNA AND PAROMOMYCIN (PART 2 OF 4). THIS FILE CONTAINS THE 50S SUBUNIT FROM MOLECULE I.
Source: Compound 23S RIBOSOMAL RNA
Source: Resolution 2.80 ANGSTROMS.
Position (594, 1206), (599, 677), (680, 818), (821, 1144), (1147, 1197)
Primary structure ('_': anchors) _GACU_-_GA_-_UU_-_CG_-_GUGCGAAU_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		4: C4'-exo, 10: C2'-exo, 13: C2'-endo, 19: C2'-endo, 20: C2'-endo, 22: C2'-endo, 23: C2'-endo, 24: C2'-endo, 25: C2'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		8: syn, 23: syn, 24: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 23 &larr
3 3 26 →
4 7 9 &larr
5 11 12 ↑
6 14 22 ↓
7 15 16 ↑
8 16 17 ↑
9 17 18 ↑
10 17 22 →
11 19 21 ↑
12 24 25 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 28 Watson-Crick/Watson-Crick cis
2 2 25 O2'/Watson-Crick ?
3 2 26 Bifurcated/O2' ?
4 3 11 O2'/Watson-Crick trans
5 3 23 Watson-Crick/Hoogsteen trans
6 4 12 Watson-Crick/Hoogsteen cis y
7 5 9 Sugar/Watson-Crick trans
8 6 7 Watson-Crick/Watson-Crick cis
9 10 11 Watson-Crick/Watson-Crick cis
10 14 15 Watson-Crick/Watson-Crick cis
11 16 22 Watson-Crick/Watson-Crick cis
12 18 19 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters