J4_8VS9_004

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

CC*GAGUAG*UGAAUAUG*CAAG

Length

20 nucleotides

Bulged bases

8VS9|1|23S|U|405

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_004 not in the Motif Atlas

Homologous match to J4_5J7L_018

Geometric discrepancy: 0.1798

The information below is about J4_5J7L_018

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_45801.6

Basepair signature

cWW-cWW-cSS-F-tHH-cWW-cSH-tWH-F-tHS-F-cWW

Number of instances in this motif group

7

Unit IDs

8VS9|1|23S|C|268
8VS9|1|23S|C|269
*
8VS9|1|23S|G|370
8VS9|1|23S|A|371
8VS9|1|23S|G|372
8VS9|1|23S|U|373
8VS9|1|23S|A|374
8VS9|1|23S|G|375
*
8VS9|1|23S|U|399
8VS9|1|23S|G|400
8VS9|1|23S|A|401
8VS9|1|23S|A|402
8VS9|1|23S|U|403
8VS9|1|23S|A|404
8VS9|1|23S|U|405
8VS9|1|23S|G|406
*
8VS9|1|23S|C|421
8VS9|1|23S|A|422
8VS9|1|23S|A|423
8VS9|1|23S|G|424

Current chains

Chain 23S

23S ribosomal RNA

Nearby chains

Chain L09

Large ribosomal subunit protein bL9

Chain L28

50S ribosomal protein L28