Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'27-Segment pdb2d3o10.i561-589
Source: [PDB-id:chain] 2d3o:0 (&rarr PDB)
Source: Information STRUCTURE OF RIBOSOME BINDING DOMAIN OF THE TRIGGER FACTOR ON THE 50S RIBOSOMAL SUBUNIT FROM D. RADIODURANS
Source: Compound 23S RIBOSOMAL RNA
Source: Resolution 3.35 ANGSTROMS.
Position (561, 589)
Primary structure ('_': anchors) _GAGCUUAAGUUGAAAAACGGAGGCGGA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		1: C2'-exo, 2: C2'-exo, 3: C4'-exo, 15: C2'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		22: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 3 4 ↑
3 3 26 →
4 4 5 ↑
5 7 8 ↑
6 7 22 ↓
7 8 9 ↑
8 9 10 ↑
9 10 11 ↑
10 11 12 ↑
11 12 13 ↑
12 15 16 ↑
13 17 18 ↑
14 18 19 ↑
15 19 20 ↑
16 22 23 →
17 23 24 ↑
18 26 27 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 8 20 Sugar/Hoogsteen trans
2 10 18 Watson-Crick/Watson-Crick cis
3 11 17 Watson-Crick/Watson-Crick cis y
4 11 18 Watson-Crick/Watson-Crick cis y
5 13 16 Hoogsteen/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters