Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'4-3-Internal Loop pdb2rkj1O.n41-76
Source: [PDB-id:chain] 2rkj:O (&rarr PDB)
Source: Information COCRYSTAL STRUCTURE OF A TYROSYL-TRNA SYNTHETASE SPLICING FACTOR WITH A GROUP I INTRON RNA
Source: Compound RNA (238-MER)
Source: Resolution 4.50 ANGSTROMS.
Position (46, 71), (51, 67)
Primary structure ('_': anchors) _AACA_-_CAA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		4: C4'-exo, 5: 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 9 &larr
3 3 10 →
4 7 8 ↑
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 2 10 Bifurcated/O2' trans y
3 3 9 O2'/Bifurcated trans
4 4 5 Watson-Crick/O2' ?
5 4 6 Watson-Crick/Watson-Crick trans y
6 4 8 Watson-Crick/Bifurcated trans
7 6 7 Watson-Crick/Watson-Crick cis y
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters