IL_6XIR_213

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

UCUCC*GAUCA

Length

10 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_6XIR_213 not in the Motif Atlas

Geometric match to IL_5TBW_376

Geometric discrepancy: 0.1222

The information below is about IL_5TBW_376

Detailed Annotation

Symmetric double minor groove platform

Broad Annotation

No text annotation

Motif group

IL_58103.9

Basepair signature

cWW-cSH-cWS-tSW-L-R-cWW-R

Number of instances in this motif group

9

Unit IDs

6XIR|1|3|U|32
6XIR|1|3|C|33
6XIR|1|3|U|34
6XIR|1|3|C|35
6XIR|1|3|C|36
*
6XIR|1|3|G|41
6XIR|1|3|A|42
6XIR|1|3|U|43
6XIR|1|3|C|44
6XIR|1|3|A|45

Current chains

Chain 3

5S ribosomal RNA

Nearby chains

Chain 1

Large subunit ribosomal RNA; LSU rRNA

Chain D

RPL5 isoform 1

Chain J

RPL11B isoform 1