Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'3-6-Internal Loop pdb1pnuF0.n2078-2095
Source: [PDB-id:chain] 1pnu:0 (&rarr PDB)
Source: Information CRYSTAL STRUCTURE OF A STREPTOMYCIN DEPENDENT RIBOSOME FROM ESCHERICHIA COLI, 50S SUBUNIT OF 70S RIBOSOME. THIS FILE, 1PNU, CONTAINS ONLY MOLECULES OF THE 50S RIBOSOMAL SUBUNIT. THE 30S SUBUNIT, MRNA, P-SITE TRNA, AND A-SITE TRNA ARE IN THE PDB FILE 1PNS.
Source: Compound 23S RIBOSOMAL RNA
FLIPPED INTERNAL
Source: Resolution 8.70 ANGSTROMS.
Position (2071, 2099), (2078, 2095)
Primary structure ('_': anchors) _GGA_-_GAAGAA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		1: C2'-exo, 2: C2'-endo, 9: C2'-endo, 10: C2'-endo, 11: C2'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		11: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 12 →
2 2 8 →
3 2 11 &larr
4 3 4 ↑
5 4 5 ↑
6 6 7 ↑
7 7 8 ↑
8 9 11 ↑
9 12 13 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 8 O2'/Watson-Crick trans y
2 1 13 Watson-Crick/Watson-Crick cis
3 2 9 Hoogsteen/Sugar trans
4 2 11 O2'/Bifurcated ?
5 2 12 Watson-Crick/O2' ?
6 3 8 Sugar/Hoogsteen trans
7 3 9 Watson-Crick/O2' ?
8 4 7 Sugar/Hoogsteen trans
9 4 8 Bifurcated/O2' ?
10 5 6 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters