IL_8VS9_031

3D structure

PDB id

8VS9 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Endogenous trans-translation complex with tmRNA*SmpB in the P site and alanyl-tRNA in the A site and deacyl-tRNA in the E site of E. coli 70S ribosome

Experimental method

ELECTRON MICROSCOPY

Resolution

3.9 Å

Loop

Sequence

CGGCUAAC*GG

Length

10 nucleotides

Bulged bases

None detected

QA status

Unknown status

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_8VS9_031 not in the Motif Atlas

Homologous match to IL_6CZR_132

Geometric discrepancy: 0.2094

The information below is about IL_6CZR_132

Detailed Annotation

SSU/LSU pseudoknot

Broad Annotation

No text annotation

Motif group

IL_41203.3

Basepair signature

cWW-L-cWW-L-L-R-cSH

Number of instances in this motif group

12

Unit IDs

8VS9|1|16S|C|504
8VS9|1|16S|G|505
8VS9|1|16S|G|506
8VS9|1|16S|C|507
8VS9|1|16S|U|508
8VS9|1|16S|A|509
8VS9|1|16S|A|510
8VS9|1|16S|C|511
*
8VS9|1|16S|G|540
8VS9|1|16S|G|541

Current chains

Chain 16S

16S ribosomal RNA

Nearby chains

Chain S04

30S ribosomal protein S4

Chain S12

30S ribosomal protein S12

Chain TMRN

Transfer-messenger RNA; tmRNA