Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'7-3-Internal Loop pdb2vhmFB.n80-106
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
FLIPPED INTERNAL
Source: Resolution 3.74 ANGSTROMS.
Position (81, 105), (85, 97)
Primary structure ('_': anchors) _GUUAUAA_-_UAA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		2: C2'-exo, 3: C2'-exo, 4: C3'-exo, 6: C3'-exo, 8: C2'-exo, 10: C2'-exo, 11: C1'-exo, 12: C4'-exo, 14: C2'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		4: syn, 5: syn, 7: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 3 ↑
3 3 11 →
4 5 6 →
5 7 8 &larr
6 8 9 ↑
7 8 10 →
8 13 14 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 14 Watson-Crick/Watson-Crick cis
2 3 10 Sugar/Sugar trans
3 3 12 Hoogsteen/Sugar trans y
4 5 6 C/O2' ?
5 5 12 O2'/Hoogsteen ?
6 8 11 O2'/Watson-Crick trans y
7 9 10 Watson-Crick/Watson-Crick cis
8 11 12 C/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters