J5_8VSA_010

3D structure

PDB id

8VSA (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 of E. coli 70S ribosome

Experimental method

ELECTRON MICROSCOPY

Resolution

3.7 Å

Loop

Sequence

UUUA*UUUG*CU*AG*CGGAUAAAA

Length

21 nucleotides

Bulged bases

8VSA|1|23S|U|2076, 8VSA|1|23S|G|2428, 8VSA|1|23S|G|2429, 8VSA|1|23S|A|2430, 8VSA|1|23S|U|2431

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_8VSA_010 not in the Motif Atlas

Homologous match to J5_4WF9_007

Geometric discrepancy: 0.0942

The information below is about J5_4WF9_007

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_39529.1

Basepair signature

cWW-cWH-cWH-F-cWW-F-F-cWW-F-cWW-cWW

Number of instances in this motif group

3

Unit IDs

8VSA|1|23S|U|2074
8VSA|1|23S|U|2075
8VSA|1|23S|U|2076
8VSA|1|23S|A|2077
*
8VSA|1|23S|U|2243
8VSA|1|23S|U|2244
8VSA|1|23S|U|2245
8VSA|1|23S|G|2246
*
8VSA|1|23S|C|2258
8VSA|1|23S|U|2259
*
8VSA|1|23S|A|2281
8VSA|1|23S|G|2282
*
8VSA|1|23S|C|2427
8VSA|1|23S|G|2428
8VSA|1|23S|G|2429
8VSA|1|23S|A|2430
8VSA|1|23S|U|2431
8VSA|1|23S|A|2432
8VSA|1|23S|A|2433
8VSA|1|23S|A|2434
8VSA|1|23S|A|2435

Current chains

Chain 23S

23S ribosomal RNA

Nearby chains

Chain L02

50S ribosomal protein L2

Chain L15

50S ribosomal protein L15

Chain L27

50S ribosomal protein L27

Chain L28

50S ribosomal protein L28

Chain L33

Large ribosomal subunit protein bL33

Chain L35

50S ribosomal protein L35