IL_6Q8Y_070

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

AAUA*UUCU

Length

8 nucleotides

Bulged bases

6Q8Y|1|2|A|1346, 6Q8Y|1|2|U|1347

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_070 not in the Motif Atlas

Homologous match to IL_4V88_456

Geometric discrepancy: 0.1607

The information below is about IL_4V88_456

Detailed Annotation

Minor groove platform

Broad Annotation

No text annotation

Motif group

IL_76458.1

Basepair signature

cWW-cSH-L-cWW

Number of instances in this motif group

2

Unit IDs

6Q8Y|1|2|A|1345
6Q8Y|1|2|A|1346
6Q8Y|1|2|U|1347
6Q8Y|1|2|A|1348
*
6Q8Y|1|2|U|1377
6Q8Y|1|2|U|1378
6Q8Y|1|2|C|1379
6Q8Y|1|2|U|1380

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain F

40S ribosomal protein S16-A

Chain J

40S ribosomal protein S20