J4_6XIQ_013

3D structure

PDB id

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

Description

Cryo-EM Structure of K63R Ubiquitin Mutant Ribosome under Oxidative Stress

Experimental method

ELECTRON MICROSCOPY

Resolution

4.2 Å

Loop

Sequence

AAG*CGAAAG*CCAUAAACUAUG*UU

Length

23 nucleotides

Bulged bases

6XIQ|1|2|A|623, 6XIQ|1|2|U|1024, 6XIQ|1|2|A|1026, 6XIQ|1|2|U|1029, 6XIQ|1|2|U|1031

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

J4_6XIQ_013 not in the Motif Atlas

Homologous match to J4_8C3A_022

Geometric discrepancy: 0.1441

The information below is about J4_8C3A_022

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_61885.4

Basepair signature

cWW-cWW-cWW-F-F-tHW-F-F-F-F-F-cWW-F-F-F-F

Number of instances in this motif group

5

Unit IDs

6XIQ|1|2|A|622
6XIQ|1|2|A|623
6XIQ|1|2|G|624
*
6XIQ|1|2|C|975
6XIQ|1|2|G|976
6XIQ|1|2|A|977
6XIQ|1|2|A|978
6XIQ|1|2|A|979
6XIQ|1|2|G|980
*
6XIQ|1|2|C|1021
6XIQ|1|2|C|1022
6XIQ|1|2|A|1023
6XIQ|1|2|U|1024
6XIQ|1|2|A|1025
6XIQ|1|2|A|1026
6XIQ|1|2|A|1027
6XIQ|1|2|C|1028
6XIQ|1|2|U|1029
6XIQ|1|2|A|1030
6XIQ|1|2|U|1031
6XIQ|1|2|G|1032
*
6XIQ|1|2|U|1103
6XIQ|1|2|U|1104

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain 1

Large subunit ribosomal RNA; LSU rRNA

Chain AB

40S ribosomal protein S11-A

Chain AD

40S ribosomal protein S13

Chain AE

40S ribosomal protein S14-B

Chain AM

RPS22A isoform 1

Chain AN

40S ribosomal protein S23-A

Chain AQ

RPS26B isoform 1

Chain n

RPL41A isoform 1