IL_8CBJ_014

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

GUA*UUUUC

Length

8 nucleotides

Bulged bases

8CBJ|1|2|U|260

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_8CBJ_014 not in the Motif Atlas

Geometric match to IL_4V88_397

Geometric discrepancy: 0.214

The information below is about IL_4V88_397

Detailed Annotation

Major groove platform with extra cWW

Broad Annotation

Major groove platform

Motif group

IL_63959.1

Basepair signature

cWW-cSH-cWW-cWW

Number of instances in this motif group

18

Unit IDs

8CBJ|1|2|G|204
8CBJ|1|2|U|205
8CBJ|1|2|A|206
*
8CBJ|1|2|U|259
8CBJ|1|2|U|260
8CBJ|1|2|U|261
8CBJ|1|2|U|262
8CBJ|1|2|C|263

Current chains

Chain 2

20S pre-ribosomal RNA

Nearby chains

Chain E

40S ribosomal protein S4-B

Chain I

40S ribosomal protein S8-A

Chain K

OTU domain-containing protein 2