J3_8ZDD_002

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

AGAUUAAG*CGCGCAAAU*AGU

Length

20 nucleotides

Bulged bases

8ZDD|1|2|A|46

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_002 not in the Motif Atlas

Homologous match to J3_8C3A_083

Geometric discrepancy: 0.0685

The information below is about J3_8C3A_083

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_46317.2

Basepair signature

cWW-F-tWH-cSW-cWW-cWW-F-F-cSW-cWW

Number of instances in this motif group

5

Unit IDs

8ZDD|1|2|A|40
8ZDD|1|2|G|41
8ZDD|1|2|A|42
8ZDD|1|2|U|43
8ZDD|1|2|U|44
8ZDD|1|2|A|45
8ZDD|1|2|A|46
8ZDD|1|2|G|47
*
8ZDD|1|2|C|479
8ZDD|1|2|G|480
8ZDD|1|2|C|481
8ZDD|1|2|G|482
8ZDD|1|2|C|483
8ZDD|1|2|A|484
8ZDD|1|2|A|485
8ZDD|1|2|A|486
8ZDD|1|2|U|487
*
8ZDD|1|2|A|512
8ZDD|1|2|G|513
8ZDD|1|2|U|514

Current chains

Chain 2

18S rRNA

Nearby chains

Chain J

Small ribosomal subunit protein uS4

Chain X

Small ribosomal subunit protein uS12

Chain u

Pre-rRNA-processing protein TSR1 homolog