HL_6Q8Y_105

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

CUGAACGCCUCUAAG

Length

15 nucleotides

Bulged bases

6Q8Y|1|BQ|G|3116, 6Q8Y|1|BQ|C|3120

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

HL_6Q8Y_105 not in the Motif Atlas

Homologous match to HL_8C3A_068

Geometric discrepancy: 0.0775

The information below is about HL_8C3A_068

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_56677.9

Basepair signature

cWW-tWH-cWH-tSH-tHW-tHW-tSW

Number of instances in this motif group

7

Unit IDs

6Q8Y|1|BQ|C|3110
6Q8Y|1|BQ|U|3111
6Q8Y|1|BQ|G|3112
6Q8Y|1|BQ|A|3113
6Q8Y|1|BQ|A|3114
6Q8Y|1|BQ|C|3115
6Q8Y|1|BQ|G|3116
6Q8Y|1|BQ|C|3117
6Q8Y|1|BQ|C|3118
6Q8Y|1|BQ|U|3119
6Q8Y|1|BQ|C|3120
6Q8Y|1|BQ|U|3121
6Q8Y|1|BQ|A|3122
6Q8Y|1|BQ|A|3123
6Q8Y|1|BQ|G|3124

Current chains

Chain BQ

25S ribosomal RNA

Nearby chains

Chain AD

60S ribosomal protein L9-A

Chain AO

Ubiquitin-60S ribosomal protein L40

Chain AU

60S ribosomal protein L16-A