HL_6Q8Y_117

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

GUUCGACUC

Length

9 nucleotides

Bulged bases

6Q8Y|1|m|C|55, 6Q8Y|1|m|G|56

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_117 not in the Motif Atlas

Homologous match to HL_2BTE_004

Geometric discrepancy: 0.3045

The information below is about HL_2BTE_004

Detailed Annotation

T-loop with 2 stacked bulged bases

Broad Annotation

T-loop

Motif group

HL_28252.9

Basepair signature

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

Number of instances in this motif group

141

Unit IDs

6Q8Y|1|m|G|52
6Q8Y|1|m|U|53
6Q8Y|1|m|U|54
6Q8Y|1|m|C|55
6Q8Y|1|m|G|56
6Q8Y|1|m|A|57
6Q8Y|1|m|C|58
6Q8Y|1|m|U|59
6Q8Y|1|m|C|60

Current chains

Chain m

E-site tRNA

Nearby chains