Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'27-Segment pdb2vhm1B.i1108-1136
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 (1108, 1136)
Primary structure ('_': anchors) _GAAGAUGUAACGGGGCUAAACCAUGCA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		1: C4'-exo, 3: C3'-exo, 4: C2'-exo, 5: C1'-exo, 6: C4'-exo, 7: C2'-endo, 8: C2'-endo, 9: C3'-exo, 10: C1'-exo, 11: C2'-endo, 12: C4'-exo, 13: C2'-exo, 16: C2'-exo, 18: C1'-exo, 19: C4'-endo, 20: C2'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		5: syn, 7: syn, 10: syn, 11: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 3 &larr
3 5 6 ↑
4 13 14 ↑
5 14 15 ↑
6 15 16 ↑
7 16 17 ↑
8 19 21 ↑
9 21 22 ↑
10 23 24 ↑
11 24 25 ↑
12 25 26 ↑
13 26 27 ↑
14 28 29 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 5 6 C/O2' ?
2 8 9 Hoogsteen/Sugar cis y
3 8 10 Hoogsteen/O2' ?
4 12 14 O2'/Hoogsteen ?
5 16 20 Bifurcated/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters