J3_8ZDC_005

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

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_8ZDC_005 not in the Motif Atlas

Homologous match to J3_8C3A_038

Geometric discrepancy: 0.1245

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

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