J3_8ZDB_003

3D structure

PDB id

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

Description

Cryo-EM structure of the human ubiquitylated 40S ribosome with RIOK3

Experimental method

ELECTRON MICROSCOPY

Resolution

3.6 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_8ZDB_003 not in the Motif Atlas

Homologous match to J3_8P9A_073

Geometric discrepancy: 0.222

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

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