J3_6Q8Y_003

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

AGAG*CAG*UCGAAU

Length

13 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

J3_6Q8Y_003 not in the Motif Atlas

Homologous match to J3_4V88_032

Geometric discrepancy: 0.1018

The information below is about J3_4V88_032

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_54972.1

Basepair signature

cWW-tWW-F-cWW-F-tHS-F-cWW

Number of instances in this motif group

2

Unit IDs

6Q8Y|1|2|A|760
6Q8Y|1|2|G|761
6Q8Y|1|2|A|762
6Q8Y|1|2|G|763
*
6Q8Y|1|2|C|773
6Q8Y|1|2|A|774
6Q8Y|1|2|G|775
*
6Q8Y|1|2|U|785
6Q8Y|1|2|C|786
6Q8Y|1|2|G|787
6Q8Y|1|2|A|788
6Q8Y|1|2|A|789
6Q8Y|1|2|U|790

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain S

40S ribosomal protein S4-A

Chain W

40S ribosomal protein S9-A

Chain d

40S ribosomal protein S24-A