Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'2-2-6-8-2-Multiloop pdb1n331A.m28-531
Source: [PDB-id:chain] 1n33:A (&rarr PDB)
Source: Information STRUCTURE OF THE THERMUS THERMOPHILUS 30S RIBOSOMAL SUBUNIT BOUND TO CODON AND NEAR-COGNATE TRANSFER RNA ANTICODON STEM-LOOP MISMATCHED AT THE SECOND CODON POSITION AT THE A SITE WITH PAROMOMYCIN
Source: Compound 16S RIBOSOMAL RNA
Source: Resolution 3.35 ANGSTROMS.
Position (32, 527), (35, 394), (397, 427), (434, 470), (479, 524)
Primary structure ('_': anchors) _UG_-_UU_-_UGAACC_-_GGGUAAUA_-_GA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		22: C2'-endo, 25: C2'-endo, 29: C2'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 3 ↑
3 4 6 →
4 4 24 →
5 8 22 ↓
6 9 10 ↑
7 10 11 ↑
8 12 13 ↑
9 12 23 →
10 13 14 ↑
11 13 21 →
12 17 18 ↑
13 18 19 ↑
14 19 20 ↑
15 22 23 ↓
16 25 29 →
17 26 28 →
18 27 28 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 30 Watson-Crick/Watson-Crick cis
2 2 29 Watson-Crick/O2' ?
3 4 5 Watson-Crick/Watson-Crick cis
4 6 24 Hoogsteen/Watson-Crick cis
5 7 25 Hoogsteen/Watson-Crick cis
6 8 9 Watson-Crick/Watson-Crick cis y
7 8 22 O2'/Hoogsteen ?
8 10 22 Hoogsteen/Watson-Crick trans
9 11 22 O2'/Bifurcated ?
10 12 21 Watson-Crick/Hoogsteen trans
11 13 20 O2'/Bifurcated trans
12 14 19 Watson-Crick/Watson-Crick cis
13 16 17 Watson-Crick/Watson-Crick cis
14 24 29 Hoogsteen/Watson-Crick trans
15 25 28 O2'/Watson-Crick ?
16 26 27 Watson-Crick/Watson-Crick cis
17 26 30 O2'/Bifurcated ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters