HL_6XIR_078

3D structure

PDB id

6XIR (explore in PDB, NAKB, or RNA 3D Hub)

Description

Cryo-EM Structure of K63 Ubiquitinated Yeast Translocating Ribosome under Oxidative Stress

Experimental method

ELECTRON MICROSCOPY

Resolution

3.2 Å

Loop

Sequence

GAUGAUUC

Length

8 nucleotides

Bulged bases

6XIR|1|2|U|249

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_6XIR_078 not in the Motif Atlas

Homologous match to HL_8P9A_195

Geometric discrepancy: 0.4205

The information below is about HL_8P9A_195

Detailed Annotation

T-loop with 1 bulged base

Broad Annotation

T-loop

Motif group

HL_77436.5

Basepair signature

cWW-F-F-F-F-F

Number of instances in this motif group

23

Unit IDs

6XIR|1|2|G|243
6XIR|1|2|A|244
6XIR|1|2|U|245
6XIR|1|2|G|246
6XIR|1|2|A|247
6XIR|1|2|U|248
6XIR|1|2|U|249
6XIR|1|2|C|250

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain AB

40S ribosomal protein S11-A

Chain u

40S ribosomal protein S4-A

Chain w

40S ribosomal protein S6-A