J3_8ZDD_005

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

AGAG*CAG*CUGGAU

Length

13 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

J3_8ZDD_005 not in the Motif Atlas

Homologous match to J3_8P9A_073

Geometric discrepancy: 0.1983

The information below is about J3_8P9A_073

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_97642.2

Basepair signature

cWW-tSH-F-F-cWW-F-tWW-cWW

Number of instances in this motif group

3

Unit IDs

8ZDD|1|2|A|816
8ZDD|1|2|G|817
8ZDD|1|2|A|818
8ZDD|1|2|G|819
*
8ZDD|1|2|C|829
8ZDD|1|2|A|830
8ZDD|1|2|G|831
*
8ZDD|1|2|C|843
8ZDD|1|2|U|844
8ZDD|1|2|G|845
8ZDD|1|2|G|846
8ZDD|1|2|A|847
8ZDD|1|2|U|848

Current chains

Chain 2

18S rRNA

Nearby chains

Chain E

Small ribosomal subunit protein eS4, X isoform

Chain J

Small ribosomal subunit protein uS4

Chain Y

Small ribosomal subunit protein eS24