J4_8VS9_006

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

CGAUAAA*UC*GCUU*AG

Length

15 nucleotides

Bulged bases

8VS9|1|23S|G|1271, 8VS9|1|23S|A|1272, 8VS9|1|23S|U|1273, 8VS9|1|23S|A|1274, 8VS9|1|23S|A|1275, 8VS9|1|23S|C|1646, 8VS9|1|23S|U|1647

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_006 not in the Motif Atlas

Homologous match to J4_5J7L_021

Geometric discrepancy: 0.1355

The information below is about J4_5J7L_021

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_64571.5

Basepair signature

cWW-F-cWW-tSS-cWW-F-cWW

Number of instances in this motif group

4

Unit IDs

8VS9|1|23S|C|1270
8VS9|1|23S|G|1271
8VS9|1|23S|A|1272
8VS9|1|23S|U|1273
8VS9|1|23S|A|1274
8VS9|1|23S|A|1275
8VS9|1|23S|A|1276
*
8VS9|1|23S|U|1294
8VS9|1|23S|C|1295
*
8VS9|1|23S|G|1645
8VS9|1|23S|C|1646
8VS9|1|23S|U|1647
8VS9|1|23S|U|1648
*
8VS9|1|23S|A|2009
8VS9|1|23S|G|2010

Current chains

Chain 23S

23S ribosomal RNA

Nearby chains

Chain L17

Large ribosomal subunit protein bL17

Chain L22

50S ribosomal protein L22

Chain L32

50S ribosomal protein L32