Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'6-7-Internal Loop pdb3b4b1B.n86-101
Source: [PDB-id:chain] 3b4b:B (&rarr PDB)
Source: Information T. TENGCONGENSIS GLMS RIBOZYME WITH G40A MUTATION, BOUND TO GLUCOSAMINE-6-PHOSPHATE AND A SUBSTRATE RNA WITH A 2'5'- PHOSPHODIESTER LINKAGE
Source: Compound GLMS RIBOZYME RNA
Source: Resolution 2.70 ANGSTROMS.
Position (79, 109), (86, 101)
Primary structure ('_': anchors) _GUAAAA_-_CAUAGAG_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		2: C3'-exo, 3: C3'-exo, 16: C2'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		3: unknown, 16: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 4 5 ↑
3 4 13 →
4 5 6 ↑
5 6 7 ↑
6 7 8 ↑
7 7 11 →
8 9 10 ↑
9 11 12 ↑
10 13 14 ↑
11 14 15 ↑
12 15 17 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 17 Watson-Crick/Watson-Crick cis
2 2 15 O2'/Bifurcated trans y
3 5 12 Watson-Crick/Hoogsteen trans
4 6 10 Bifurcated/O2' ?
5 6 11 Watson-Crick/Hoogsteen trans
6 7 8 Bifurcated/O2' ?
7 7 10 Watson-Crick/Hoogsteen trans
8 8 9 Watson-Crick/Watson-Crick cis
9 15 16 Sugar/O2' ?
10 16 17 Bifurcated/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters