J5_8VS9_002

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

CUGG*CGUG*CUUUCAG*CAGAAGAAG*CAAG

Length

28 nucleotides

Bulged bases

None detected

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

J5_8VS9_002 not in the Motif Atlas

Homologous match to J5_5J7L_002

Geometric discrepancy: 0.1262

The information below is about J5_5J7L_002

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_67416.1

Basepair signature

cWW-F-F-F-cWW-tHW-F-tHW-tSS-cWW-cHW-cWW-F-cWW-F-cWW-F-F

Number of instances in this motif group

1

Unit IDs

8VS9|1|16S|C|36
8VS9|1|16S|U|37
8VS9|1|16S|G|38
8VS9|1|16S|G|39
*
8VS9|1|16S|C|403
8VS9|1|16S|G|404
8VS9|1|16S|U|405
8VS9|1|16S|G|406
*
8VS9|1|16S|C|436
8VS9|1|16S|U|437
8VS9|1|16S|U|438
8VS9|1|16S|U|439
8VS9|1|16S|C|440
8VS9|1|16S|A|441
8VS9|1|16S|G|442
*
8VS9|1|16S|C|492
8VS9|1|16S|A|493
8VS9|1|16S|G|494
8VS9|1|16S|A|495
8VS9|1|16S|A|496
8VS9|1|16S|G|497
8VS9|1|16S|A|498
8VS9|1|16S|A|499
8VS9|1|16S|G|500
*
8VS9|1|16S|C|545
8VS9|1|16S|A|546
8VS9|1|16S|A|547
8VS9|1|16S|G|548

Current chains

Chain 16S

16S ribosomal RNA

Nearby chains

Chain S04

30S ribosomal protein S4

Chain S12

30S ribosomal protein S12