J4_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

GGUUC*GGUGAG*CU*AAUCGUAC

Length

21 nucleotides

Bulged bases

8VS9|1|23S|G|1341

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_007 not in the Motif Atlas

Homologous match to J4_5J7L_022

Geometric discrepancy: 0.0937

The information below is about J4_5J7L_022

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_69051.6

Basepair signature

cWW-F-cWW-F-tHW-F-cWW-F-F-F-F-F-cWW-cWW

Number of instances in this motif group

7

Unit IDs

8VS9|1|23S|G|1310
8VS9|1|23S|G|1311
8VS9|1|23S|U|1312
8VS9|1|23S|U|1313
8VS9|1|23S|C|1314
*
8VS9|1|23S|G|1338
8VS9|1|23S|G|1339
8VS9|1|23S|U|1340
8VS9|1|23S|G|1341
8VS9|1|23S|A|1342
8VS9|1|23S|G|1343
*
8VS9|1|23S|C|1404
8VS9|1|23S|U|1405
*
8VS9|1|23S|A|1597
8VS9|1|23S|A|1598
8VS9|1|23S|U|1599
8VS9|1|23S|C|1600
8VS9|1|23S|G|1601
8VS9|1|23S|U|1602
8VS9|1|23S|A|1603
8VS9|1|23S|C|1604

Current chains

Chain 23S

23S ribosomal RNA

Nearby chains

Chain L23

50S ribosomal protein L23

Chain L34

50S ribosomal protein L34