Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'5-5-Internal Loop pdb2v3c1M.n57-82
Source: [PDB-id:chain] 2v3c:M (&rarr PDB)
Source: Information CRYSTAL STRUCTURE OF THE SRP54-SRP19-7S.S SRP RNA COMPLEX OF M. JANNASCHII
Source: Compound 7S RNA
Source: Resolution 2.5 ANGSTROMS.
Position (59, 80), (65, 74)
Primary structure ('_': anchors) _CCAGG_-_AGCAA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		3: C2'-exo, 4: C4'-exo, 10: C4'-exo, 13: 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 ↑
3 3 10 &larr
4 4 5 ↑
5 5 6 ↑
6 6 7 ↑
7 8 9 ↑
8 9 10 ↑
9 11 12 ↑
10 12 13 ↑
11 13 14 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 14 Watson-Crick/Watson-Crick cis
2 2 13 Watson-Crick/Watson-Crick cis y
3 3 11 O2'/Bifurcated ?
4 3 12 Bifurcated/O2' ?
5 4 10 Watson-Crick/O2' ?
6 4 11 Watson-Crick/Hoogsteen trans
7 5 10 Sugar/Hoogsteen trans y
8 6 9 Watson-Crick/Watson-Crick cis
9 7 8 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters