IL_8VS9_051

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

GCA*UUCCC

Length

8 nucleotides

Bulged bases

8VS9|1|16S|C|934

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_051 not in the Motif Atlas

Geometric match to IL_5J7L_041

Geometric discrepancy: 0.2139

The information below is about IL_5J7L_041

Detailed Annotation

Minor groove platform

Broad Annotation

No text annotation

Motif group

IL_47078.3

Basepair signature

cWW-cWS-L-cWW-L

Number of instances in this motif group

4

Unit IDs

8VS9|1|16S|G|933
8VS9|1|16S|C|934
8VS9|1|16S|A|935
*
8VS9|1|16S|U|1380
8VS9|1|16S|U|1381
8VS9|1|16S|C|1382
8VS9|1|16S|C|1383
8VS9|1|16S|C|1384

Current chains

Chain 16S

16S ribosomal RNA

Nearby chains

Chain ETRN

Transfer RNA; tRNA

Chain S07

30S ribosomal protein S7

Chain S09

Small ribosomal subunit protein uS9

Chain SMPB

SsrA-binding protein