Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'7-9-Internal Loop pdb2v461A.n1230-1261
Source: [PDB-id:chain] 2v46:A (&rarr PDB)
Source: Information STRUCTURE OF THE RIBOSOME RECYCLING FACTOR BOUND TO THE THERMUS THERMOPHILUS 70S RIBOSOME WITH MRNA, ASL-PHE AND TRNA-FMET (PART 1 OF 4). THIS FILE CONTAINS THE 30S SUBUNIT, MRNA, P-SITE ASL, E-SITE TRNA AND RRF FOR MOLECULE 1.
Source: Compound 16S RRNA
Source: Resolution 3.8 ANGSTROMS.
Position (1231, 1260), (1239, 1250)
Primary structure ('_': anchors) _GAUGCCA_-_GAGCUAAUC_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		17: C2'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		3: syn, 18: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 2 16 ↑
2 2 20 →
3 5 6 ↑
4 8 9 ↑
5 8 12 →
6 10 11 ↑
7 12 13 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 20 Watson-Crick/Watson-Crick cis
2 2 5 Sugar/O2' ?
3 3 15 O2'/Bifurcated ?
4 6 13 Watson-Crick/Watson-Crick cis
5 6 20 Sugar/O2' ?
6 8 9 Bifurcated/O2' ?
7 8 11 Bifurcated/Hoogsteen trans y
8 9 10 Watson-Crick/Watson-Crick cis
9 13 19 O2'/Sugar ?
10 16 19 Bifurcated/O2' ?
11 18 19 Bifurcated/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters