3D structure

PDB id
6Q8Y (explore in PDB, NAKB, or RNA 3D Hub)
Description
Cryo-EM structure of the mRNA translating and degrading yeast 80S ribosome-Xrn1 nuclease complex
Experimental method
ELECTRON MICROSCOPY
Resolution
3.1 Å

Loop

Sequence
AGGGCAAG*CU
Length
10 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_6Q8Y_031 not in the Motif Atlas
Homologous match to IL_4V88_413
Geometric discrepancy: 0.1615
The information below is about IL_4V88_413
Detailed Annotation
SSU/LSU pseudoknot
Broad Annotation
No text annotation
Motif group
IL_41203.1
Basepair signature
cWW-L-cWW-L-L-R-cSH
Number of instances in this motif group
10

Unit IDs

6Q8Y|1|2|A|550
6Q8Y|1|2|G|551
6Q8Y|1|2|G|552
6Q8Y|1|2|G|553
6Q8Y|1|2|C|554
6Q8Y|1|2|A|555
6Q8Y|1|2|A|556
6Q8Y|1|2|G|557
*
6Q8Y|1|2|C|587
6Q8Y|1|2|U|588

Current chains

Chain 2
18S ribosomal RNA

Nearby chains

Chain R
40S ribosomal protein S2
Chain W
40S ribosomal protein S9-A
Chain g
40S ribosomal protein S30-A

Coloring options:


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