J3_8VS9_030

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

CCUG*CGAUAGUGAACCAGUAC*GGAAAG

Length

27 nucleotides

Bulged bases

8VS9|1|23S|U|34, 8VS9|1|23S|U|448, 8VS9|1|23S|C|456

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

J3_8VS9_030 not in the Motif Atlas

Homologous match to J3_5J7L_067

Geometric discrepancy: 0.1205

The information below is about J3_5J7L_067

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_30040.2

Basepair signature

cWW-tWH-F-cWW-tSS-tHH-cSS-tWH-tSW-tHS-cWW-tWH-F-cSH-tSS-F-F

Number of instances in this motif group

7

Unit IDs

8VS9|1|23S|C|32
8VS9|1|23S|C|33
8VS9|1|23S|U|34
8VS9|1|23S|G|35
*
8VS9|1|23S|C|445
8VS9|1|23S|G|446
8VS9|1|23S|A|447
8VS9|1|23S|U|448
8VS9|1|23S|A|449
8VS9|1|23S|G|450
8VS9|1|23S|U|451
8VS9|1|23S|G|452
8VS9|1|23S|A|453
8VS9|1|23S|A|454
8VS9|1|23S|C|455
8VS9|1|23S|C|456
8VS9|1|23S|A|457
8VS9|1|23S|G|458
8VS9|1|23S|U|459
8VS9|1|23S|A|460
8VS9|1|23S|C|461
*
8VS9|1|23S|G|468
8VS9|1|23S|G|469
8VS9|1|23S|A|470
8VS9|1|23S|A|471
8VS9|1|23S|A|472
8VS9|1|23S|G|473

Current chains

Chain 23S

23S ribosomal RNA

Nearby chains

Chain L04

50S ribosomal protein L4

Chain L20

50S ribosomal protein L20

Chain L23

50S ribosomal protein L23

Chain L34

50S ribosomal protein L34