IL_8VS9_150

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

CCGG*CG

Length

6 nucleotides

Bulged bases

8VS9|1|23S|C|1838

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

IL_8VS9_150 not in the Motif Atlas

Homologous match to IL_5J7L_314

Geometric discrepancy: 0.1751

The information below is about IL_5J7L_314

Detailed Annotation

Minor groove platform, major groove intercalation

Broad Annotation

Minor groove platform, major groove intercalation

Motif group

IL_95583.2

Basepair signature

cWW-L-cWW

Number of instances in this motif group

11

Unit IDs

8VS9|1|23S|C|1837
8VS9|1|23S|C|1838
8VS9|1|23S|G|1839
8VS9|1|23S|G|1840
*
8VS9|1|23S|C|1902
8VS9|1|23S|G|1903

Current chains

Chain 23S

23S ribosomal RNA

Nearby chains

Chain 16S

Small subunit ribosomal RNA; SSU rRNA

Chain L02

50S ribosomal protein L2