IL_8ZDC_019

3D structure

PDB id

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

Description

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

Experimental method

ELECTRON MICROSCOPY

Resolution

3.8 Å

Loop

Sequence

UAUCAA*UGACCACG

Length

14 nucleotides

Bulged bases

8ZDC|1|2|U|361, 8ZDC|1|2|C|399, 8ZDC|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_8ZDC_019 not in the Motif Atlas

Homologous match to IL_8C3A_410

Geometric discrepancy: 0.1018

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

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