IL_6Q8Y_219

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*CGAU

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_219 not in the Motif Atlas

Geometric match to IL_4V9F_100

Geometric discrepancy: 0.2064

The information below is about IL_4V9F_100

Detailed Annotation

Double sheared

Broad Annotation

Double sheared

Motif group

IL_58355.1

Basepair signature

cWW-tSH-tHS-cWW

Number of instances in this motif group

44

Unit IDs

6Q8Y|1|BQ|A|3342
6Q8Y|1|BQ|G|3343
6Q8Y|1|BQ|A|3344
6Q8Y|1|BQ|G|3345
*
6Q8Y|1|BQ|C|3360
6Q8Y|1|BQ|G|3361
6Q8Y|1|BQ|A|3362
6Q8Y|1|BQ|U|3363

Current chains

Chain BQ

25S ribosomal RNA

Nearby chains

Chain BF

60S ribosomal protein L19-A

Chain V

40S ribosomal protein S8-A