Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'8-8-Internal Loop pdb2vhmFB.n1844-1866
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 (1835, 1875), (1844, 1866)
Primary structure ('_': anchors) _UGAUCGAA_-_UAAUUGAU_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		3: C2'-exo, 4: C4'-exo, 7: C2'-exo, 8: O4'-endo, 13: C2'-exo, 14: O4'-endo, 15: C4'-exo, 17: C2'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		4: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 3 ↑
3 3 18 →
4 4 5 &larr
5 5 6 ↑
6 6 7 ↑
7 7 13 →
8 8 9 ↑
9 8 14 &larr
10 12 13 ↑
11 14 15 ↑
12 16 17 ↑
13 17 18 ↑
14 19 20 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 20 Watson-Crick/Watson-Crick cis
2 4 17 O2'/Bifurcated ?
3 7 8 Hoogsteen/O2' ?
4 8 13 Sugar/Hoogsteen trans
5 8 14 O2'/Bifurcated ?
6 10 11 Watson-Crick/Watson-Crick cis y
7 13 14 Hoogsteen/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters