IL_8ZDD_019

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

UAUCAA*UGACCACG

Length

14 nucleotides

Bulged bases

8ZDD|1|2|U|361, 8ZDD|1|2|C|399, 8ZDD|1|2|C|400

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_019 not in the Motif Atlas

Homologous match to IL_8C3A_410

Geometric discrepancy: 0.0967

The information below is about IL_8C3A_410

Detailed Annotation

Kink-turn with non-sequential stacking

Broad Annotation

Kink-turn

Motif group

IL_46174.1

Basepair signature

cWW-cSS-tSS-tSH-L-cWW-tHW-cWW

Number of instances in this motif group

6

Unit IDs

8ZDD|1|2|U|359
8ZDD|1|2|A|360
8ZDD|1|2|U|361
8ZDD|1|2|C|362
8ZDD|1|2|A|363
8ZDD|1|2|A|364
*
8ZDD|1|2|U|396
8ZDD|1|2|G|397
8ZDD|1|2|A|398
8ZDD|1|2|C|399
8ZDD|1|2|C|400
8ZDD|1|2|A|401
8ZDD|1|2|C|402
8ZDD|1|2|G|403

Current chains

Chain 2

18S rRNA

Nearby chains

Chain I

Small ribosomal subunit protein eS8

Chain L

Small ribosomal subunit protein uS17

Chain X

Small ribosomal subunit protein uS12