Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'5-2-Internal Loop pdb1cql1A.n1-43
Source: [PDB-id:chain] 1cql:A (&rarr PDB)
Source: Information NMR STRUCTURE OF SRP RNA DOMAIN IV
Source: Compound SRP DOMAIN IV RNA
Source: Resolution NOT APPLICABLE.
Position (6, 38), (12, 35)
Primary structure ('_': anchors) _UACCA_-_AA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		2: C1'-exo, 3: C3'-exo, 5: O4'-endo, 6: C2'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		4: syn, 6: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 2 3 →
2 3 4 ↑
3 4 5 &larr
4 7 9 →
5 8 9 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 11 Watson-Crick/Watson-Crick cis
2 3 4 Hoogsteen/O2' ?
3 4 6 Hoogsteen/Hoogsteen trans y
4 4 10 Bifurcated/O2' ?
5 4 11 Bifurcated/O2' ?
6 5 6 C/O2' ?
7 5 9 O2'/Bifurcated ?
8 6 9 Sugar/Hoogsteen trans y
9 7 8 Watson-Crick/Watson-Crick cis
10 9 10 C/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters