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
GGAGUACG*UAAAAC
Length
14 nucleotides
Bulged bases
None detected
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
IL_8VS9_047 not in the Motif Atlas
Homologous match to IL_5J7L_038
Geometric discrepancy: 0.1156
The information below is about IL_5J7L_038
Detailed Annotation
8x6 Sarcin-Ricin with inserted Y; G-bulge
Broad Annotation
Sarcin-Ricin; G-bulge
Motif group
IL_41756.4
Basepair signature
cWW-tSH-tHH-cSH-tWH-tHS-cWW-L
Number of instances in this motif group
4

Unit IDs

8VS9|1|16S|G|887
8VS9|1|16S|G|888
8VS9|1|16S|A|889
8VS9|1|16S|G|890
8VS9|1|16S|U|891
8VS9|1|16S|A|892
8VS9|1|16S|C|893
8VS9|1|16S|G|894
*
8VS9|1|16S|U|905
8VS9|1|16S|A|906
8VS9|1|16S|A|907
8VS9|1|16S|A|908
8VS9|1|16S|A|909
8VS9|1|16S|C|910

Current chains

Chain 16S
16S ribosomal RNA

Nearby chains

Chain S12
30S ribosomal protein S12

Coloring options:


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