Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'6-8-Internal Loop pdb2j001A.n1239-1250
Source: [PDB-id:chain] 2j00:A (&rarr PDB)
Source: Information STRUCTURE OF THE THERMUS THERMOPHILUS 70S RIBOSOME COMPLEXED WITH MRNA, TRNA AND PAROMOMYCIN (PART 1 OF 4). THIS FILE CONTAINS THE 30S SUBUNIT, MRNA, A-, P- AND E- SITE TRNAS AND PAROMOMYCIN FOR MOLECULE I.
Source: Compound 16S RRNA
Source: Resolution 2.80 ANGSTROMS.
Position (1232, 1259), (1239, 1250)
Primary structure ('_': anchors) _AUGCCA_-_GAGCUAAU_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		16: C2'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		2: syn, 6: syn, 15: syn, 17: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 15 ↑
2 4 5 ↑
3 7 8 ↑
4 7 11 →
5 9 10 ↑
6 11 12 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 18 Watson-Crick/Watson-Crick cis y
2 2 14 O2'/Bifurcated ?
3 4 13 Watson-Crick/Watson-Crick cis y
4 7 8 Bifurcated/O2' ?
5 7 10 Sugar/Hoogsteen trans y
6 8 9 Watson-Crick/Watson-Crick cis
7 13 15 C/O2' ?
8 15 18 Bifurcated/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters