HL_6Q8Y_051

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

UCUUGAAACA

Length

10 nucleotides

Bulged bases

6Q8Y|1|BQ|C|648

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_051 not in the Motif Atlas

Homologous match to HL_8C3A_014

Geometric discrepancy: 0.076

The information below is about HL_8C3A_014

Detailed Annotation

T-loop with 2 stacked bulged bases

Broad Annotation

T-loop

Motif group

HL_43993.1

Basepair signature

cWW-tWH-F-F-F-F-F

Number of instances in this motif group

141

Unit IDs

6Q8Y|1|BQ|U|640
6Q8Y|1|BQ|C|641
6Q8Y|1|BQ|U|642
6Q8Y|1|BQ|U|643
6Q8Y|1|BQ|G|644
6Q8Y|1|BQ|A|645
6Q8Y|1|BQ|A|646
6Q8Y|1|BQ|A|647
6Q8Y|1|BQ|C|648
6Q8Y|1|BQ|A|649

Current chains

Chain BQ

25S ribosomal RNA

Nearby chains

Chain AR

60S ribosomal protein L28

Chain BA

60S ribosomal protein L3

Chain BG

60S ribosomal protein L32