Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'6-6-Internal Loop pdb2vhm1B.n2691-2707
Source: [PDB-id:chain] 2vhm:B (&rarr PDB)
Source: Information STRUCTURE OF PDF BINDING HELIX IN COMPLEX WITH THE RIBOSOME (PART 1 OF 4)
Source: Compound 23S RIBOSOMAL RNA
Source: Resolution 3.74 ANGSTROMS.
Position (2684, 2714), (2691, 2707)
Primary structure ('_': anchors) _AUAAGU_-_ACGAAA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		1: C2'-exo, 2: C4'-exo, 6: C2'-exo, 8: C2'-exo, 9: C2'-exo, 10: C2'-exo, 11: C2'-exo, 12: C1'-endo, 14: O4'-exo, 16: C2'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		7: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 3 ↑
3 4 5 ↑
4 4 13 →
5 5 6 ↑
6 8 10 →
7 15 16 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 16 Watson-Crick/Watson-Crick cis
2 2 15 Watson-Crick/Watson-Crick cis y
3 3 13 Hoogsteen/Watson-Crick trans
4 4 12 O2'/Bifurcated ?
5 5 12 O2'/Bifurcated trans y
6 6 11 Watson-Crick/Bifurcated cis y
7 8 9 Watson-Crick/Watson-Crick cis
8 13 15 Hoogsteen/Hoogsteen cis y
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters