J3_6Q8Y_017

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

UGAACUA*UAG*CGAA

Length

14 nucleotides

Bulged bases

6Q8Y|1|BQ|A|817, 6Q8Y|1|BQ|G|924

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_017 not in the Motif Atlas

Homologous match to J3_8C3A_003

Geometric discrepancy: 0.0794

The information below is about J3_8C3A_003

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_39238.5

Basepair signature

cWW-tWH-cWW-tSW-F-F-cWW

Number of instances in this motif group

7

Unit IDs

6Q8Y|1|BQ|U|814
6Q8Y|1|BQ|G|815
6Q8Y|1|BQ|A|816
6Q8Y|1|BQ|A|817
6Q8Y|1|BQ|C|818
6Q8Y|1|BQ|U|819
6Q8Y|1|BQ|A|820
*
6Q8Y|1|BQ|U|905
6Q8Y|1|BQ|A|906
6Q8Y|1|BQ|G|907
*
6Q8Y|1|BQ|C|923
6Q8Y|1|BQ|G|924
6Q8Y|1|BQ|A|925
6Q8Y|1|BQ|A|926

Current chains

Chain BQ

25S ribosomal RNA

Nearby chains

Chain AF

60S ribosomal protein L37-A

Chain AQ

60S ribosomal protein L15-A

Chain AW

60S ribosomal protein L2-A