IL_6Q8Y_080

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

CGAU*AGAG

Length

8 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_080 not in the Motif Atlas

Geometric match to IL_4V88_468

Geometric discrepancy: 0.0859

The information below is about IL_4V88_468

Detailed Annotation

Double sheared

Broad Annotation

Double sheared

Motif group

IL_09705.12

Basepair signature

cWW-tSH-tHS-cWW

Number of instances in this motif group

35

Unit IDs

6Q8Y|1|2|C|1653
6Q8Y|1|2|G|1654
6Q8Y|1|2|A|1655
6Q8Y|1|2|U|1656
*
6Q8Y|1|2|A|1744
6Q8Y|1|2|G|1745
6Q8Y|1|2|A|1746
6Q8Y|1|2|G|1747

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain AS

60S ribosomal protein L41-B

Chain BQ

Large subunit ribosomal RNA; LSU rRNA