Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'10-9-12-7-9-Multiloop pdb1vor1B.m1994-2553
Source: [PDB-id:chain] 1vor:B (&rarr PDB)
Source: Information CRYSTAL STRUCTURE OF FIVE 70S RIBOSOMES FROM ESCHERICHIA COLI IN COMPLEX WITH PROTEIN Y. THIS FILE CONTAINS THE 50S SUBUNIT OF ONE 70S RIBOSOME. THE ENTIRE CRYSTAL STRUCTURE CONTAINS FIVE 70S RIBOSOMES AND IS DESCRIBED IN REMARK 400.
Source: Compound 23S RIBOSOMAL RNA
Source: Resolution 1.50 ANGSTROMS.
Position (1995, 2552), (2006, 2382), (2392, 2431), (2444, 2516), (2524, 2542)
Primary structure ('_': anchors) _ACGAAAAGAC_-_GAUAACAGG_-_CACCUCGAUGUC_-_GGGUUCA_-_GGUCUCUAU_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		25: C2'-exo, 39: C4'-exo, 44: C4'-exo, 52: C4'-exo, 54: C4'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		10: syn, 14: syn, 25: syn, 39: syn, 45: syn, 55: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 5 6 ↑
2 8 31 →
3 9 11 ↑
4 9 32 →
5 11 12 ↑
6 13 30 &larr
7 14 30 →
8 17 18 ↑
9 20 21 ↑
10 21 22 ↑
11 35 36 ↑
12 36 37 ↑
13 41 42 ↑
14 48 49 ↑
15 52 53 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 57 Watson-Crick/Watson-Crick cis
2 3 29 Sugar/Hoogsteen cis y
3 4 52 Hoogsteen/Watson-Crick trans y
4 4 53 Watson-Crick/Watson-Crick cis y
5 9 10 Watson-Crick/O2' ?
6 9 18 Watson-Crick/Watson-Crick cis y
7 10 12 Bifurcated/O2' ?
8 10 32 Hoogsteen/Hoogsteen trans
9 12 13 Watson-Crick/Watson-Crick cis
10 12 17 Hoogsteen/Sugar trans y
11 21 27 Watson-Crick/Watson-Crick cis
12 23 24 Watson-Crick/Watson-Crick cis
13 24 25 Bifurcated/O2' ?
14 36 40 Watson-Crick/Watson-Crick cis
15 37 38 Watson-Crick/Watson-Crick cis
16 38 40 Hoogsteen/O2' ?
17 39 41 Hoogsteen/O2' ?
18 40 49 Hoogsteen/O2' ?
19 41 43 Watson-Crick/Watson-Crick cis y
20 41 49 Hoogsteen/O2' ?
21 42 44 O2'/Watson-Crick ?
22 45 49 Bifurcated/O2' ?
23 46 47 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters