IL_6Q8Y_161

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

GGAA*UC

Length

6 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

IL_6Q8Y_161 not in the Motif Atlas

Geometric match to IL_5TBW_076

Geometric discrepancy: 0.0771

The information below is about IL_5TBW_076

Detailed Annotation

Major groove platform; stack outside cWW

Broad Annotation

Major groove platform

Motif group

IL_50694.4

Basepair signature

cWW-cWW-tSH-cWW-R

Number of instances in this motif group

28

Unit IDs

6Q8Y|1|BQ|G|1898
6Q8Y|1|BQ|G|1899
6Q8Y|1|BQ|A|1900
6Q8Y|1|BQ|A|1901
*
6Q8Y|1|BQ|U|2336
6Q8Y|1|BQ|C|2337

Current chains

Chain BQ

25S ribosomal RNA

Nearby chains

Chain AB

60S ribosomal protein L23-A

Chain BA

60S ribosomal protein L3