J3_6Q8Y_031

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

AGAUUAAG*CGCGCAAAU*AGU

Length

20 nucleotides

Bulged bases

6Q8Y|1|2|A|47

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

J3_6Q8Y_031 not in the Motif Atlas

Homologous match to J3_8P9A_069

Geometric discrepancy: 0.078

The information below is about J3_8P9A_069

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_63856.1

Basepair signature

cWW-cWW-cSW-F-cWW-F-tHH-F-cWW-F-F-F-F

Number of instances in this motif group

5

Unit IDs

6Q8Y|1|2|A|41
6Q8Y|1|2|G|42
6Q8Y|1|2|A|43
6Q8Y|1|2|U|44
6Q8Y|1|2|U|45
6Q8Y|1|2|A|46
6Q8Y|1|2|A|47
6Q8Y|1|2|G|48
*
6Q8Y|1|2|C|431
6Q8Y|1|2|G|432
6Q8Y|1|2|C|433
6Q8Y|1|2|G|434
6Q8Y|1|2|C|435
6Q8Y|1|2|A|436
6Q8Y|1|2|A|437
6Q8Y|1|2|A|438
6Q8Y|1|2|U|439
*
6Q8Y|1|2|A|464
6Q8Y|1|2|G|465
6Q8Y|1|2|U|466

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain V

40S ribosomal protein S8-A

Chain c

40S ribosomal protein S23-A