Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'6-9-Internal Loop pdb2hgu1A.n319-367
Source: [PDB-id:chain] 2hgu:A (&rarr PDB)
Source: Information 70S T.TH. RIBOSOME FUNCTIONAL COMPLEX WITH MRNA AND E- AND P-SITE TRNAS AT 4.5A. THIS ENTRY 2HGU CONTAINS 50S RIBOSOMAL SUBUNIT. THE 30S RIBOSOMAL SUBUNIT CAN BE FOUND IN PDB ENTRY 2HGR.
Source: Compound 23S RRNA
Source: Resolution 4.51 ANGSTROMS.
Position (312, 377), (319, 367)
Primary structure ('_': anchors) _AGCCUA_-_GAAAGGUGG_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		3: C2'-exo, 6: C2'-exo, 14: C2'-exo, 15: C4'-exo, 16: C2'-exo, 17: C2'-exo, 18: C2'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		3: syn, 6: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 4 5 ↑
2 7 12 →
3 10 11 ↑
4 14 15 ↑
5 15 16 ↑
6 18 19 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 2 O2'/Bifurcated ?
2 1 19 Watson-Crick/Watson-Crick cis
3 2 17 Bifurcated/O2' ?
4 3 16 Watson-Crick/Watson-Crick cis
5 3 17 Bifurcated/O2' ?
6 5 6 Watson-Crick/Hoogsteen trans y
7 5 14 Watson-Crick/Watson-Crick cis
8 8 9 Watson-Crick/Watson-Crick cis
9 8 10 O2'/Bifurcated ?
10 12 13 Hoogsteen/O2' ?
11 17 18 Hoogsteen/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters