J3_6Q8Y_021

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

UGAAGUG*CAA*UCUA

Length

14 nucleotides

Bulged bases

6Q8Y|1|BQ|A|1482

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_021 not in the Motif Atlas

Homologous match to J3_5TBW_008

Geometric discrepancy: 0.0818

The information below is about J3_5TBW_008

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_10154.2

Basepair signature

cWW-tWW-tHW-cWW-tSH-cWW-cWW-F-F

Number of instances in this motif group

3

Unit IDs

6Q8Y|1|BQ|U|1479
6Q8Y|1|BQ|G|1480
6Q8Y|1|BQ|A|1481
6Q8Y|1|BQ|A|1482
6Q8Y|1|BQ|G|1483
6Q8Y|1|BQ|U|1484
6Q8Y|1|BQ|G|1485
*
6Q8Y|1|BQ|C|1857
6Q8Y|1|BQ|A|1858
6Q8Y|1|BQ|A|1859
*
6Q8Y|1|BQ|U|1871
6Q8Y|1|BQ|C|1872
6Q8Y|1|BQ|U|1873
6Q8Y|1|BQ|A|1874

Current chains

Chain BQ

25S ribosomal RNA

Nearby chains

Chain BF

60S ribosomal protein L19-A

Chain BN

60S ribosomal protein L34-A