IL_6Q8Y_028

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

GAG*CGAGGAAC

Length

11 nucleotides

Bulged bases

6Q8Y|1|2|A|538, 6Q8Y|1|2|A|541

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_028 not in the Motif Atlas

Geometric match to IL_7RQB_082

Geometric discrepancy: 0.3073

The information below is about IL_7RQB_082

Detailed Annotation

Isolated tHS basepair with bulges

Broad Annotation

No text annotation

Motif group

IL_38958.7

Basepair signature

cWW-tHS-cWW

Number of instances in this motif group

15

Unit IDs

6Q8Y|1|2|G|514
6Q8Y|1|2|A|515
6Q8Y|1|2|G|516
*
6Q8Y|1|2|C|536
6Q8Y|1|2|G|537
6Q8Y|1|2|A|538
6Q8Y|1|2|G|539
6Q8Y|1|2|G|540
6Q8Y|1|2|A|541
6Q8Y|1|2|A|542
6Q8Y|1|2|C|543

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain W

40S ribosomal protein S9-A

Chain g

40S ribosomal protein S30-A