Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'2-5-Internal Loop pdb1cqlFA.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
FLIPPED INTERNAL
Source: Resolution NOT APPLICABLE.
Position (6, 38), (12, 35)
Primary structure ('_': anchors) _AA_-_UACCA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		6: C2'-endo, 7: O4'-endo, 9: C3'-exo, 10: C1'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		6: syn, 8: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 3 4 ↑
2 3 5 →
3 7 8 &larr
4 8 9 ↑
5 9 10 →
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 8 Bifurcated/O2' ?
2 1 11 Watson-Crick/Watson-Crick cis
3 2 3 C/O2' ?
4 2 8 Bifurcated/O2' ?
5 3 6 Sugar/Hoogsteen trans y
6 3 7 O2'/Bifurcated ?
7 4 5 Watson-Crick/Watson-Crick cis
8 6 7 C/O2' ?
9 6 8 Hoogsteen/Hoogsteen trans y
10 8 9 Hoogsteen/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters