J3_6XIR_038

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

AGAUAAAAAAUCAAUG*CUCUUUG*CAU

Length

26 nucleotides

Bulged bases

6XIR|1|2|A|215, 6XIR|1|2|U|216, 6XIR|1|2|A|217, 6XIR|1|2|A|225, 6XIR|1|2|A|226, 6XIR|1|2|U|227, 6XIR|1|2|U|238, 6XIR|1|2|C|239, 6XIR|1|2|U|240, 6XIR|1|2|U|241, 6XIR|1|2|U|242

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

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

Not in a motif group

Basepair signature

Not available

Number of instances in this motif group

0

Unit IDs

6XIR|1|2|A|213
6XIR|1|2|G|214
6XIR|1|2|A|215
6XIR|1|2|U|216
6XIR|1|2|A|217
6XIR|1|2|A|218
6XIR|1|2|A|219
6XIR|1|2|A|220
6XIR|1|2|A|221
6XIR|1|2|A|222
6XIR|1|2|U|223
6XIR|1|2|C|224
6XIR|1|2|A|225
6XIR|1|2|A|226
6XIR|1|2|U|227
6XIR|1|2|G|228
*
6XIR|1|2|C|237
6XIR|1|2|U|238
6XIR|1|2|C|239
6XIR|1|2|U|240
6XIR|1|2|U|241
6XIR|1|2|U|242
6XIR|1|2|G|243
*
6XIR|1|2|C|250
6XIR|1|2|A|251
6XIR|1|2|U|252

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