J5_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

CGAUGAAG*CGAAUG*CA*UAU*AGG

Length

22 nucleotides

Bulged bases

8VS9|1|23S|U|50

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_004 not in the Motif Atlas

Homologous match to J5_5J7L_013

Geometric discrepancy: 0.098

The information below is about J5_5J7L_013

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_01737.2

Basepair signature

cWW-F-cWW-F-cWW-tSH-tHH-tHS-cWW-cWW-cWW-F

Number of instances in this motif group

5

Unit IDs

8VS9|1|23S|C|47
8VS9|1|23S|G|48
8VS9|1|23S|A|49
8VS9|1|23S|U|50
8VS9|1|23S|G|51
8VS9|1|23S|A|52
8VS9|1|23S|A|53
8VS9|1|23S|G|54
*
8VS9|1|23S|C|116
8VS9|1|23S|G|117
8VS9|1|23S|A|118
8VS9|1|23S|A|119
8VS9|1|23S|U|120
8VS9|1|23S|G|121
*
8VS9|1|23S|C|130
8VS9|1|23S|A|131
*
8VS9|1|23S|U|148
8VS9|1|23S|A|149
8VS9|1|23S|U|150
*
8VS9|1|23S|A|176
8VS9|1|23S|G|177
8VS9|1|23S|G|178

Current chains

Chain 23S

23S ribosomal RNA

Nearby chains

Chain L34

50S ribosomal protein L34