J4_8VS9_014

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

AUAG*CGC*GAGGUCU*AU

Length

16 nucleotides

Bulged bases

8VS9|1|ATRN|U|8, 8VS9|1|ATRN|U|47, 8VS9|1|ATRN|C|48

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_014 not in the Motif Atlas

Homologous match to J4_7YSE_001

Geometric discrepancy: 0.2476

The information below is about J4_7YSE_001

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_70449.28

Basepair signature

cWW-F-cWW-cWW-cHS-F-cWW-cWW

Number of instances in this motif group

55

Unit IDs

8VS9|1|ATRN|A|7
8VS9|1|ATRN|U|8
8VS9|1|ATRN|A|9
8VS9|1|ATRN|G|10
*
8VS9|1|ATRN|C|25
8VS9|1|ATRN|G|26
8VS9|1|ATRN|C|27
*
8VS9|1|ATRN|G|43
8VS9|1|ATRN|A|44
8VS9|1|ATRN|G|45
8VS9|1|ATRN|G|46
8VS9|1|ATRN|U|47
8VS9|1|ATRN|C|48
8VS9|1|ATRN|U|49
*
8VS9|1|ATRN|A|65
8VS9|1|ATRN|U|66

Current chains

Chain ATRN

A-tRNA

Nearby chains

Chain 23S

Large subunit ribosomal RNA; LSU rRNA