IL_6Q8Y_073

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

GUCUAAC*GUAAUC

Length

13 nucleotides

Bulged bases

6Q8Y|1|2|A|1516, 6Q8Y|1|2|U|1517

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_073 not in the Motif Atlas

Homologous match to IL_4V88_460

Geometric discrepancy: 0.2927

The information below is about IL_4V88_460

Detailed Annotation

180 degree turn

Broad Annotation

No text annotation

Motif group

IL_77092.1

Basepair signature

cWW-L-R-L-R-L-cWW-L

Number of instances in this motif group

2

Unit IDs

6Q8Y|1|2|G|1488
6Q8Y|1|2|U|1489
6Q8Y|1|2|C|1490
6Q8Y|1|2|U|1491
6Q8Y|1|2|A|1492
6Q8Y|1|2|A|1493
6Q8Y|1|2|C|1494
*
6Q8Y|1|2|G|1513
6Q8Y|1|2|U|1514
6Q8Y|1|2|A|1515
6Q8Y|1|2|A|1516
6Q8Y|1|2|U|1517
6Q8Y|1|2|C|1518

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain A

40S ribosomal protein S3

Chain J

40S ribosomal protein S20

Chain M

40S ribosomal protein S29-A