3D structure

PDB id
8K2D (explore in PDB, NAKB, or RNA 3D Hub)
Description
Cryo-EM structure of the yeast 80S ribosome with tigecycline, eEF2, Stm1 and eIF5A
Experimental method
ELECTRON MICROSCOPY
Resolution
3.2 Å

Loop

Sequence
CUC*GAA*UAAAAG
Length
12 nucleotides
Bulged bases
8K2D|1|C1|A|2703
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
J3_8K2D_009 not in the Motif Atlas
Homologous match to J3_8P9A_062
Geometric discrepancy: 0.0735
The information below is about J3_8P9A_062
Detailed Annotation
No text annotation
Broad Annotation
No text annotation
Motif group
J3_05327.1
Basepair signature
cWW-tWH-tWW-cWW-F-cWW
Number of instances in this motif group
10

Unit IDs

8K2D|1|C1|C|2664
8K2D|1|C1|U|2665
8K2D|1|C1|C|2666
*
8K2D|1|C1|G|2690
8K2D|1|C1|A|2691
8K2D|1|C1|A|2692
*
8K2D|1|C1|U|2701
8K2D|1|C1|A|2702
8K2D|1|C1|A|2703
8K2D|1|C1|A|2704
8K2D|1|C1|A|2705
8K2D|1|C1|G|2706

Current chains

Chain C1
23S rRNA

Nearby chains

Chain C4
5S ribosomal RNA; 5S rRNA
Chain CS
Suppressor protein STM1
Chain LD
Large ribosomal subunit protein uL18
Chain LJ
Large ribosomal subunit protein uL5A
Chain LT
Large ribosomal subunit protein eL21A

Coloring options:


Copyright 2025 BGSU RNA group. Page generated in 0.1793 s