Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'5-3-Internal Loop pdb2vhm1B.n2623-2678
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 (2627, 2674), (2633, 2670)
Primary structure ('_': anchors) _CACUG_-_UAA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		1: C4'-exo, 2: C1'-exo, 4: C2'-exo, 5: C2'-exo, 6: C2'-exo, 9: C2'-exo, 10: C2'-endo, 11: O4'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 6 7 ↑
2 6 10 →
3 10 12 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 12 Watson-Crick/Watson-Crick cis
2 2 10 Hoogsteen/Watson-Crick trans
3 4 12 Sugar/Watson-Crick cis y
4 5 10 Watson-Crick/Watson-Crick cis
5 5 12 O2'/Watson-Crick ?
6 6 11 Watson-Crick/O2' ?
7 7 8 Watson-Crick/Watson-Crick cis
8 10 12 Hoogsteen/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters