J5_8VS9_007

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

GCAAAAUGG*CG*UC*GAUACCAGC*GGC

Length

25 nucleotides

Bulged bases

8VS9|1|23S|U|1758, 8VS9|1|23S|G|1763

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_007 not in the Motif Atlas

Homologous match to J5_5J7L_016

Geometric discrepancy: 0.1513

The information below is about J5_5J7L_016

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_62523.6

Basepair signature

cWW-F-F-F-cWW-F-F-F-F-F-F-F-F-F-cWW-F-cWW-cWW

Number of instances in this motif group

7

Unit IDs

8VS9|1|23S|G|1674
8VS9|1|23S|C|1675
8VS9|1|23S|A|1676
8VS9|1|23S|A|1677
8VS9|1|23S|A|1678
8VS9|1|23S|A|1679
8VS9|1|23S|U|1680
8VS9|1|23S|G|1681
8VS9|1|23S|G|1682
*
8VS9|1|23S|C|1706
8VS9|1|23S|G|1707
*
8VS9|1|23S|U|1751
8VS9|1|23S|C|1752
*
8VS9|1|23S|G|1756
8VS9|1|23S|A|1757
8VS9|1|23S|U|1758
8VS9|1|23S|A|1759
8VS9|1|23S|C|1760
8VS9|1|23S|C|1761
8VS9|1|23S|A|1762
8VS9|1|23S|G|1763
8VS9|1|23S|C|1764
*
8VS9|1|23S|G|1988
8VS9|1|23S|G|1989
8VS9|1|23S|C|1990

Current chains

Chain 23S

23S ribosomal RNA

Nearby chains

Chain 16S

Small subunit ribosomal RNA; SSU rRNA

Chain L03

50S ribosomal protein L3

Chain L14

50S ribosomal protein L14

Chain L19

50S ribosomal protein L19