IL_8ZDD_031

3D structure

PDB id

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

Description

Cryo-EM structure of the human ubiquitylated pre-40S ribosome with RIOK3 (without NOB1)

Experimental method

ELECTRON MICROSCOPY

Resolution

3.7 Å

Loop

Sequence

AGGGCAAG*CU

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_8ZDD_031 not in the Motif Atlas

Homologous match to IL_8P9A_402

Geometric discrepancy: 0.1185

The information below is about IL_8P9A_402

Detailed Annotation

SSU/LSU pseudoknot

Broad Annotation

No text annotation

Motif group

IL_11411.1

Basepair signature

cWW-L-cWW-L-L-R-cSH

Number of instances in this motif group

12

Unit IDs

8ZDD|1|2|A|599
8ZDD|1|2|G|600
8ZDD|1|2|G|601
8ZDD|1|2|G|602
8ZDD|1|2|C|603
8ZDD|1|2|A|604
8ZDD|1|2|A|605
8ZDD|1|2|G|606
*
8ZDD|1|2|C|636
8ZDD|1|2|U|637

Current chains

Chain 2

18S rRNA

Nearby chains

Chain C

Small ribosomal subunit protein uS5

Chain J

Small ribosomal subunit protein uS4

Chain p

Serine/threonine-protein kinase RIO3