Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'8-4-0-2-8-11-3-3-6-Multiloop pdb2hgq1A.m43-461
Source: [PDB-id:chain] 2hgq:A (&rarr PDB)
Source: Information CRYSTAL STRUCTURE OF THE 70S THERMUS THERMOPHILUS RIBOSOME WITH TRANSLOCATED AND ROTATED SHINE-DALGARNO DUPLEX. THIS ENTRY 2HGQ CONTAINS 50S RIBOSOMAL SUBUNIT. THE 30S RIBOSOMAL SUBUNIT CAN BE FOUND IN PDB ENTRY 2HGP.
Source: Compound 23S RIBOSOMAL RNA
Source: Resolution 5.50 ANGSTROMS.
Position (44, 460), (53, 114), (119, 128), (129, 148), (151, 164), (173, 201), (213, 220), (224, 251), (255, 453)
Primary structure ('_': anchors) _CCGAUGAA_-_GAAU_-__-_AC_-_GGGGGAAC_-_AGGAGAGGAAA_-_GAC_-_CCA_-_UAAGUA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		9: C2'-exo, 14: C2'-exo, 16: C2'-exo, 17: C2'-exo, 20: C2'-exo, 21: C4'-exo, 28: C2'-exo, 29: C2'-exo, 32: C4'-exo, 36: C4'-exo, 37: C2'-exo, 38: C2'-exo, 40: C2'-exo, 42: C2'-exo, 43: C4'-exo, 47: C2'-exo, 51: C4'-exo, 53: C4'-exo, 54: C2'-exo, 61: C2'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		13: syn, 20: syn, 43: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 3 4 ↑
2 3 27 →
3 4 26 →
4 8 9 ↑
5 9 10 ↑
6 11 12 ↑
7 13 14 →
8 16 18 →
9 20 21 &larr
10 23 24 ↑
11 24 25 ↑
12 26 27 ↑
13 27 28 ↑
14 29 30 ↑
15 30 31 ↑
16 35 36 ↑
17 37 38 ↑
18 37 62 →
19 38 39 ↑
20 39 40 ↑
21 40 41 ↑
22 43 45 ↑
23 48 49 ↑
24 49 50 ↑
25 54 55 ↑
26 58 59 ↑
27 62 63 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 63 Watson-Crick/Watson-Crick cis
2 3 26 Watson-Crick/Watson-Crick cis
3 4 13 Watson-Crick/O2' ?
4 4 25 O2'/Bifurcated ?
5 5 7 C/O2' ?
6 5 13 Hoogsteen/Sugar trans y
7 7 13 Bifurcated/O2' ?
8 7 14 Bifurcated/O2' ?
9 7 15 Watson-Crick/Watson-Crick trans y
10 8 12 Watson-Crick/O2' ?
11 8 26 O2'/Watson-Crick ?
12 9 10 Hoogsteen/O2' ?
13 9 12 Sugar/Hoogsteen trans
14 10 11 Watson-Crick/Watson-Crick cis
15 13 14 Hoogsteen/O2' ?
16 15 20 Sugar/O2' ?
17 16 17 Watson-Crick/Watson-Crick cis
18 18 19 Watson-Crick/Watson-Crick cis
19 22 23 Watson-Crick/Watson-Crick cis
20 28 29 Hoogsteen/O2' ?
21 28 35 Hoogsteen/Watson-Crick trans y
22 28 36 Hoogsteen/Sugar trans y
23 30 63 O2'/Sugar ?
24 31 36 Watson-Crick/Watson-Crick cis
25 31 62 Sugar/O2' ?
26 32 33 Watson-Crick/Watson-Crick cis
27 37 61 Watson-Crick/Hoogsteen trans y
28 39 50 O2'/Watson-Crick ?
29 41 48 Sugar/O2' ?
30 41 58 O2'/Watson-Crick ?
31 43 47 O2'/Watson-Crick trans y
32 45 46 Watson-Crick/Watson-Crick cis
33 48 59 Watson-Crick/Watson-Crick trans
34 49 60 Watson-Crick/Watson-Crick trans y
35 50 51 Watson-Crick/Watson-Crick cis
36 51 60 O2'/Sugar cis y
37 52 53 Hoogsteen/Watson-Crick cis y
38 55 56 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters