J4_8VSA_003

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

GCG*CGAAAG*CCGUAAACGAUG*CC

Length

23 nucleotides

Bulged bases

8VSA|1|16S|C|576, 8VSA|1|16S|A|815, 8VSA|1|16S|C|817, 8VSA|1|16S|A|819

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_8VSA_003 not in the Motif Atlas

Homologous match to J4_5J7L_003

Geometric discrepancy: 0.0895

The information below is about J4_5J7L_003

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_61885.6

Basepair signature

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

Number of instances in this motif group

4

Unit IDs

8VSA|1|16S|G|575
8VSA|1|16S|C|576
8VSA|1|16S|G|577
*
8VSA|1|16S|C|764
8VSA|1|16S|G|765
8VSA|1|16S|A|766
8VSA|1|16S|A|767
8VSA|1|16S|A|768
8VSA|1|16S|G|769
*
8VSA|1|16S|C|810
8VSA|1|16S|C|811
8VSA|1|16S|G|812
8VSA|1|16S|U|813
8VSA|1|16S|A|814
8VSA|1|16S|A|815
8VSA|1|16S|A|816
8VSA|1|16S|C|817
8VSA|1|16S|G|818
8VSA|1|16S|A|819
8VSA|1|16S|U|820
8VSA|1|16S|G|821
*
8VSA|1|16S|C|879
8VSA|1|16S|C|880

Current chains

Chain 16S

16S ribosomal RNA

Nearby chains

Chain 23S

Large subunit ribosomal RNA; LSU rRNA

Chain S08

30S ribosomal protein S8

Chain S12

30S ribosomal protein S12

Chain S15

Small ribosomal subunit protein uS15

Chain S17

Small ribosomal subunit protein uS17

Chain S21

30S ribosomal protein S21