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
GCG*CGAAAG*CCGUAAACGAUG*CC
Length
23 nucleotides
Bulged bases
8VS9|1|16S|C|576, 8VS9|1|16S|A|815, 8VS9|1|16S|G|818, 8VS9|1|16S|U|820
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_003 not in the Motif Atlas
Homologous match to J4_5J7L_003
Geometric discrepancy: 0.104
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

8VS9|1|16S|G|575
8VS9|1|16S|C|576
8VS9|1|16S|G|577
*
8VS9|1|16S|C|764
8VS9|1|16S|G|765
8VS9|1|16S|A|766
8VS9|1|16S|A|767
8VS9|1|16S|A|768
8VS9|1|16S|G|769
*
8VS9|1|16S|C|810
8VS9|1|16S|C|811
8VS9|1|16S|G|812
8VS9|1|16S|U|813
8VS9|1|16S|A|814
8VS9|1|16S|A|815
8VS9|1|16S|A|816
8VS9|1|16S|C|817
8VS9|1|16S|G|818
8VS9|1|16S|A|819
8VS9|1|16S|U|820
8VS9|1|16S|G|821
*
8VS9|1|16S|C|879
8VS9|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

Coloring options:


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