HL_6Q8Y_042

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

UUGGAACA

Length

8 nucleotides

Bulged bases

6Q8Y|1|BQ|C|200

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_042 not in the Motif Atlas

Homologous match to HL_8C3A_005

Geometric discrepancy: 0.0825

The information below is about HL_8C3A_005

Detailed Annotation

T-loop with 2 stacked bulged bases

Broad Annotation

T-loop

Motif group

HL_58705.1

Basepair signature

cWW-tWH-F-F-F

Number of instances in this motif group

23

Unit IDs

6Q8Y|1|BQ|U|194
6Q8Y|1|BQ|U|195
6Q8Y|1|BQ|G|196
6Q8Y|1|BQ|G|197
6Q8Y|1|BQ|A|198
6Q8Y|1|BQ|A|199
6Q8Y|1|BQ|C|200
6Q8Y|1|BQ|A|201

Current chains

Chain BQ

25S ribosomal RNA

Nearby chains

Chain AK

60S ribosomal protein L26-A

Chain BE

60S ribosomal protein L4-A

Chain BG

60S ribosomal protein L32