HL_6Q8Y_068

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

AUGAGAACU

Length

9 nucleotides

Bulged bases

None detected

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_068 not in the Motif Atlas

Homologous match to HL_8C3A_031

Geometric discrepancy: 0.0965

The information below is about HL_8C3A_031

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|A|1462
6Q8Y|1|BQ|U|1463
6Q8Y|1|BQ|G|1464
6Q8Y|1|BQ|A|1465
6Q8Y|1|BQ|G|1466
6Q8Y|1|BQ|A|1467
6Q8Y|1|BQ|A|1468
6Q8Y|1|BQ|C|1469
6Q8Y|1|BQ|U|1470

Current chains

Chain BQ

25S ribosomal RNA

Nearby chains

Chain AX

60S ribosomal protein L17-A

Chain BC

60S ribosomal protein L31-A

Chain BF

60S ribosomal protein L19-A