J4_8CBJ_002

3D structure

PDB id

8CBJ (explore in PDB, NAKB, or RNA 3D Hub)

Description

Cryo-EM structure of Otu2-bound cytoplasmic pre-40S ribosome biogenesis complex

Experimental method

ELECTRON MICROSCOPY

Resolution

3.8 Å

Loop

Sequence

AAG*CGAAAG*CCAUAAACUAUG*UU

Length

23 nucleotides

Bulged bases

8CBJ|1|2|A|623, 8CBJ|1|2|A|1026, 8CBJ|1|2|C|1028, 8CBJ|1|2|U|1029, 8CBJ|1|2|A|1030, 8CBJ|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_8CBJ_002 not in the Motif Atlas

Homologous match to J4_8P9A_022

Geometric discrepancy: 0.1063

The information below is about J4_8P9A_022

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_14595.1

Basepair signature

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

Number of instances in this motif group

5

Unit IDs

8CBJ|1|2|A|622
8CBJ|1|2|A|623
8CBJ|1|2|G|624
*
8CBJ|1|2|C|975
8CBJ|1|2|G|976
8CBJ|1|2|A|977
8CBJ|1|2|A|978
8CBJ|1|2|A|979
8CBJ|1|2|G|980
*
8CBJ|1|2|C|1021
8CBJ|1|2|C|1022
8CBJ|1|2|A|1023
8CBJ|1|2|U|1024
8CBJ|1|2|A|1025
8CBJ|1|2|A|1026
8CBJ|1|2|A|1027
8CBJ|1|2|C|1028
8CBJ|1|2|U|1029
8CBJ|1|2|A|1030
8CBJ|1|2|U|1031
8CBJ|1|2|G|1032
*
8CBJ|1|2|U|1103
8CBJ|1|2|U|1104

Current chains

Chain 2

20S pre-ribosomal RNA

Nearby chains

Chain L

40S ribosomal protein S11-A

Chain N

40S ribosomal protein S13

Chain O

40S ribosomal protein S14-A

Chain W

40S ribosomal protein S22-A

Chain X

40S ribosomal protein S23-A

Chain h

Pre-rRNA-processing protein PNO1

Chain y

rRNA adenine N(6)-methyltransferase