IL_6Q8Y_019

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

UAUCAA*UUUCAACG

Length

14 nucleotides

Bulged bases

6Q8Y|1|2|U|313, 6Q8Y|1|2|C|351

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_019 not in the Motif Atlas

Homologous match to IL_4V88_402

Geometric discrepancy: 0.0855

The information below is about IL_4V88_402

Detailed Annotation

Kink-turn with non-sequential stacking

Broad Annotation

Kink-turn

Motif group

IL_45067.5

Basepair signature

cWW-tSH-tSS-tHS-R-cWW-cWW-R

Number of instances in this motif group

16

Unit IDs

6Q8Y|1|2|U|311
6Q8Y|1|2|A|312
6Q8Y|1|2|U|313
6Q8Y|1|2|C|314
6Q8Y|1|2|A|315
6Q8Y|1|2|A|316
*
6Q8Y|1|2|U|348
6Q8Y|1|2|U|349
6Q8Y|1|2|U|350
6Q8Y|1|2|C|351
6Q8Y|1|2|A|352
6Q8Y|1|2|A|353
6Q8Y|1|2|C|354
6Q8Y|1|2|G|355

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain V

40S ribosomal protein S8-A

Chain X

40S ribosomal protein S11-A

Chain c

40S ribosomal protein S23-A