J4_8VS9_001

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

GAGUAAUG*UG*CUAG*CC

Length

16 nucleotides

Bulged bases

8VS9|1|16S|U|121

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

J4_8VS9_001 not in the Motif Atlas

Homologous match to J4_5J7L_001

Geometric discrepancy: 0.2863

The information below is about J4_5J7L_001

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_35578.3

Basepair signature

cWW-F-cWW-F-F-F-tHW-F-cWW-cWW

Number of instances in this motif group

2

Unit IDs

8VS9|1|16S|G|115
8VS9|1|16S|A|116
8VS9|1|16S|G|117
8VS9|1|16S|U|118
8VS9|1|16S|A|119
8VS9|1|16S|A|120
8VS9|1|16S|U|121
8VS9|1|16S|G|122
*
8VS9|1|16S|U|239
8VS9|1|16S|G|240
*
8VS9|1|16S|C|286
8VS9|1|16S|U|287
8VS9|1|16S|A|288
8VS9|1|16S|G|289
*
8VS9|1|16S|C|311
8VS9|1|16S|C|312

Current chains

Chain 16S

16S ribosomal RNA

Nearby chains

Chain S16

30S ribosomal protein S16

Chain S17

Small ribosomal subunit protein uS17