J4_8VS9_011

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

CUG*CG*CCUAAGGUAG*CGAAUG

Length

21 nucleotides

Bulged bases

8VS9|1|23S|U|1971

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_011 not in the Motif Atlas

Homologous match to J4_9DFE_008

Geometric discrepancy: 0.1422

The information below is about J4_9DFE_008

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_93343.1

Basepair signature

cWW-tSS-cSS-cWH-cWW-tWH-tHS-cWW-cWW-tWW-F-cSH-F-F

Number of instances in this motif group

4

Unit IDs

8VS9|1|23S|C|1833
8VS9|1|23S|U|1834
8VS9|1|23S|G|1835
*
8VS9|1|23S|C|1905
8VS9|1|23S|G|1906
*
8VS9|1|23S|C|1924
8VS9|1|23S|C|1925
8VS9|1|23S|U|1926
8VS9|1|23S|A|1927
8VS9|1|23S|A|1928
8VS9|1|23S|G|1929
8VS9|1|23S|G|1930
8VS9|1|23S|U|1931
8VS9|1|23S|A|1932
8VS9|1|23S|G|1933
*
8VS9|1|23S|C|1967
8VS9|1|23S|G|1968
8VS9|1|23S|A|1969
8VS9|1|23S|A|1970
8VS9|1|23S|U|1971
8VS9|1|23S|G|1972

Current chains

Chain 23S

23S ribosomal RNA

Nearby chains

Chain 16S

Small subunit ribosomal RNA; SSU rRNA

Chain L02

50S ribosomal protein L2

Chain SMPB

SsrA-binding protein