Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'15-Hairpin pdb1q861A.e2553-2569
Source: [PDB-id:chain] 1q86:A (&rarr PDB)
Source: Information CRYSTAL STRUCTURE OF CCA-PHE-CAP-BIOTIN BOUND SIMULTANEOUSLY AT HALF OCCUPANCY TO BOTH THE A-SITE AND P- SITE OF THE THE 50S RIBOSOMAL SUBUNIT.
Source: Compound 23S RIBOSOMAL RNA
Source: Resolution 3.00 ANGSTROMS.
Position (2553, 2569)
Primary structure ('_': anchors) _UAGUACGAGAGGAAC_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		3: C2'-endo, 4: C2'-endo, 14: C2'-exo
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 &larr
3 3 5 →
4 4 13 &larr
5 6 7 ↑
6 6 14 →
7 7 8 ↑
8 9 10 ↑
9 10 11 ↑
10 11 12 ↑
11 12 13 ↑
12 14 15 ↑
13 15 16 ↑
14 16 17 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 17 Watson-Crick/Watson-Crick cis
2 2 16 Hoogsteen/Sugar trans y
3 3 15 O2'/Bifurcated trans
4 4 5 Hoogsteen/Sugar cis y
5 4 14 O2'/Bifurcated ?
6 5 13 Watson-Crick/O2' ?
7 5 14 Hoogsteen/Watson-Crick trans
8 6 7 Bifurcated/O2' ?
9 6 13 O2'/Bifurcated trans
10 7 12 Watson-Crick/Watson-Crick cis
11 8 10 O2'/Sugar ?
12 8 11 O2'/Bifurcated ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters