J3_8ZDD_008

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

CCAG*CCAGUAA*UGAUUAAG

Length

19 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_008 not in the Motif Atlas

Homologous match to J3_8C3A_038

Geometric discrepancy: 0.156

The information below is about J3_8C3A_038

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_25303.2

Basepair signature

cWW-tSH-tHW-cSH-cSS-tHH-cSS-tWW-F-tHS-cWW-cWW

Number of instances in this motif group

5

Unit IDs

8ZDD|1|2|C|1218
8ZDD|1|2|C|1219
8ZDD|1|2|A|1220
8ZDD|1|2|G|1221
*
8ZDD|1|2|C|1645
8ZDD|1|2|C|1646
8ZDD|1|2|A|1647
8ZDD|1|2|G|1648
8ZDD|1|2|U|1649
8ZDD|1|2|A|1650
8ZDD|1|2|A|1651
*
8ZDD|1|2|U|1673
8ZDD|1|2|G|1674
8ZDD|1|2|A|1675
8ZDD|1|2|U|1676
8ZDD|1|2|U|1677
8ZDD|1|2|A|1678
8ZDD|1|2|A|1679
8ZDD|1|2|G|1680

Current chains

Chain 2

18S rRNA

Nearby chains

Chain F

Small ribosomal subunit protein uS7

Chain Q

Small ribosomal subunit protein uS9

Chain c

Small ribosomal subunit protein eS28