3D structure

PDB id
5D8B (explore in PDB, NAKB, or RNA 3D Hub)
Description
Crystal structure of T. thermophilus ribosome containing a P-site wobble mismatch
Experimental method
X-RAY DIFFRACTION
Resolution
3.63 Å

Loop

Sequence
GGUAAAG*CGAAAAUGAUCGGGGC
Length
23 nucleotides
Bulged bases
5D8B|1|ZC|U|1026, 5D8B|1|ZC|A|1127, 5D8B|1|ZC|U|1130
QA status
Valid loop

Sequence variability

If this chain is mapped to an Rfam alignment, the link below will give its sequence variability.
R3DSVS

Structural variability across Equivalence Class

The link below will give the loop's structural variability across the equivalence class for this chain.
R3DMCS EC

Structural variability across Rfam

If this chain is mapped to an Rfam alignment, the link below will give the loop's structural variability between chains mapped to the same Rfam family.
R3DMCS Rfam
IL_5D8B_304 not in the Motif Atlas
Geometric match to IL_7RQB_040
Geometric discrepancy: 0.0977
The information below is about IL_7RQB_040
Detailed Annotation
No text annotation
Broad Annotation
No text annotation
Motif group
IL_50715.1
Basepair signature
cWW-tSH-tHH-L-R-L-R-L-tWW-L-cWW-L-L-L-R-L
Number of instances in this motif group
4

Unit IDs

5D8B|1|ZC|G|1024
5D8B|1|ZC|G|1025
5D8B|1|ZC|U|1026
5D8B|1|ZC|A|1027
5D8B|1|ZC|A|1028
5D8B|1|ZC|A|1029
5D8B|1|ZC|G|1030
*
5D8B|1|ZC|C|1124
5D8B|1|ZC|G|1125
5D8B|1|ZC|A|1126
5D8B|1|ZC|A|1127
5D8B|1|ZC|A|1128
5D8B|1|ZC|A|1129
5D8B|1|ZC|U|1130
5D8B|1|ZC|G|1131
5D8B|1|ZC|A|1132
5D8B|1|ZC|U|1133
5D8B|1|ZC|C|1135
5D8B|1|ZC|G|1136
5D8B|1|ZC|G|1137
5D8B|1|ZC|G|1138
5D8B|1|ZC|G|1139
5D8B|1|ZC|C|1140

Current chains

Chain ZC
23S ribosomal RNA

Nearby chains

Chain AD
5S ribosomal RNA; 5S rRNA
Chain DB
50S ribosomal protein L13
Chain GB
50S ribosomal protein L16
Chain XA
50S ribosomal protein L3

Coloring options:


Copyright 2025 BGSU RNA group. Page generated in 0.1269 s