J5_8ZDB_001

3D structure

PDB id

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

Description

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

Experimental method

ELECTRON MICROSCOPY

Resolution

3.6 Å

Loop

Sequence

CUUGU*AAAUAAC*GGAAUG*CCAU*AUAG

Length

26 nucleotides

Bulged bases

8ZDB|1|2|A|525, 8ZDB|1|2|C|593

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

J5_8ZDB_001 not in the Motif Atlas

Homologous match to J5_8C3A_018

Geometric discrepancy: 0.1347

The information below is about J5_8C3A_018

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_19320.1

Basepair signature

cWW-F-F-F-F-F-cWW-cWW-cWH-F-cWW-F-F-cWW-F-cWW-cWW

Number of instances in this motif group

1

Unit IDs

8ZDB|1|2|C|30
8ZDB|1|2|U|31
8ZDB|1|2|U|32
8ZDB|1|2|G|33
8ZDB|1|2|U|34
*
8ZDB|1|2|A|521
8ZDB|1|2|A|522
8ZDB|1|2|A|523
8ZDB|1|2|U|524
8ZDB|1|2|A|525
8ZDB|1|2|A|526
8ZDB|1|2|C|527
*
8ZDB|1|2|G|558
8ZDB|1|2|G|559
8ZDB|1|2|A|560
8ZDB|1|2|A|561
8ZDB|1|2|U|562
8ZDB|1|2|G|563
*
8ZDB|1|2|C|592
8ZDB|1|2|C|593
8ZDB|1|2|A|594
8ZDB|1|2|U|595
*
8ZDB|1|2|A|641
8ZDB|1|2|U|642
8ZDB|1|2|A|643
8ZDB|1|2|G|644

Current chains

Chain 2

18S rRNA

Nearby chains

Chain J

Small ribosomal subunit protein uS4

Chain X

Small ribosomal subunit protein uS12

Chain e

Small ribosomal subunit protein eS30