IL_6Q8Y_105

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

GAAUGUAG*UAUUAUAGC

Length

17 nucleotides

Bulged bases

6Q8Y|1|BQ|U|534, 6Q8Y|1|BQ|U|558

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_105 not in the Motif Atlas

Homologous match to IL_5TBW_020

Geometric discrepancy: 0.1314

The information below is about IL_5TBW_020

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_07703.1

Basepair signature

cWW-tSH-cSH-tWH-cSH-cHW-cWH-cWW-cWW

Number of instances in this motif group

2

Unit IDs

6Q8Y|1|BQ|G|531
6Q8Y|1|BQ|A|532
6Q8Y|1|BQ|A|533
6Q8Y|1|BQ|U|534
6Q8Y|1|BQ|G|535
6Q8Y|1|BQ|U|536
6Q8Y|1|BQ|A|537
6Q8Y|1|BQ|G|538
*
6Q8Y|1|BQ|U|553
6Q8Y|1|BQ|A|554
6Q8Y|1|BQ|U|555
6Q8Y|1|BQ|U|556
6Q8Y|1|BQ|A|557
6Q8Y|1|BQ|U|558
6Q8Y|1|BQ|A|559
6Q8Y|1|BQ|G|560
6Q8Y|1|BQ|C|561

Current chains

Chain BQ

25S ribosomal RNA

Nearby chains

Chain AM

60S ribosomal protein L14-A

Chain BH

60S ribosomal protein L20-A