IL_8VS9_032

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

GUGCCAG*CGGUAAUAC

Length

16 nucleotides

Bulged bases

8VS9|1|16S|A|532, 8VS9|1|16S|U|534

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_8VS9_032 not in the Motif Atlas

Geometric match to IL_4V88_415

Geometric discrepancy: 0.1803

The information below is about IL_4V88_415

Detailed Annotation

Kink-turn related

Broad Annotation

No text annotation

Motif group

IL_54177.1

Basepair signature

cWW-cSW-tWH-L-R-L-R-tHS-cWW

Number of instances in this motif group

5

Unit IDs

8VS9|1|16S|G|515
8VS9|1|16S|U|516
8VS9|1|16S|G|517
8VS9|1|16S|C|518
8VS9|1|16S|C|519
8VS9|1|16S|A|520
8VS9|1|16S|G|521
*
8VS9|1|16S|C|528
8VS9|1|16S|G|529
8VS9|1|16S|G|530
8VS9|1|16S|U|531
8VS9|1|16S|A|532
8VS9|1|16S|A|533
8VS9|1|16S|U|534
8VS9|1|16S|A|535
8VS9|1|16S|C|536

Current chains

Chain 16S

16S ribosomal RNA

Nearby chains

Chain ATRN

Transfer RNA; tRNA

Chain S03

30S ribosomal protein S3

Chain S04

30S ribosomal protein S4

Chain S12

30S ribosomal protein S12

Chain TMRN

Transfer-messenger RNA; tmRNA