Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'17-Hairpin pdb1q961B.e5-23
Source: [PDB-id:chain] 1q96:B (&rarr PDB)
Source: Information CRYSTAL STRUCTURE OF A MUTANT OF THE SARCIN/RICIN DOMAIN FROM RAT 28S RRNA
Source: Compound SARCIN/RICIN 28S RRNA
Source: Resolution 1.75 ANGSTROMS.
Position (5, 23)
Primary structure ('_': anchors) _UCAGUAUGAGAAGAACC_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		4: C2'-endo, 5: C2'-endo, 15: C2'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		5: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 3 ↑
3 3 4 &larr
4 4 6 →
5 5 14 &larr
6 7 8 ↑
7 7 15 →
8 8 9 ↑
9 9 13 →
10 10 11 ↑
11 11 12 ↑
12 13 14 ↑
13 15 16 ↑
14 16 17 ↑
15 17 18 ↑
16 18 19 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 19 Watson-Crick/Watson-Crick cis
2 2 18 Bifurcated/Watson-Crick trans y
3 3 17 Bifurcated/O2' trans y
4 4 16 O2'/Bifurcated trans
5 5 6 Hoogsteen/Sugar cis y
6 6 14 Bifurcated/O2' ?
7 6 15 Hoogsteen/Watson-Crick trans
8 7 14 O2'/Bifurcated trans
9 8 13 Watson-Crick/Watson-Crick cis
10 9 11 Hoogsteen/O2' ?
11 9 12 O2'/Bifurcated trans
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters