J3_6ZN5_013

3D structure

PDB id

6ZN5 (explore in PDB, NAKB, or RNA 3D Hub)

Description

SARS-CoV-2 Nsp1 bound to a pre-40S-like ribosome complex - state 2

Experimental method

ELECTRON MICROSCOPY

Resolution

3.2 Å

Loop

Sequence

AGAUUAAG*CGCGCAAAU*AGU

Length

20 nucleotides

Bulged bases

6ZN5|1|2|A|46

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_6ZN5_013 not in the Motif Atlas

Homologous match to J3_8P9A_069

Geometric discrepancy: 0.0674

The information below is about J3_8P9A_069

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_46317.4

Basepair signature

cWW-cWW-cSW-F-cWW-F-F-F-F-cWW-F-F-F-F

Number of instances in this motif group

4

Unit IDs

6ZN5|1|2|A|40
6ZN5|1|2|G|41
6ZN5|1|2|A|42
6ZN5|1|2|U|43
6ZN5|1|2|U|44
6ZN5|1|2|A|45
6ZN5|1|2|A|46
6ZN5|1|2|G|47
*
6ZN5|1|2|C|479
6ZN5|1|2|G|480
6ZN5|1|2|C|481
6ZN5|1|2|G|482
6ZN5|1|2|C|483
6ZN5|1|2|A|484
6ZN5|1|2|A|485
6ZN5|1|2|A|486
6ZN5|1|2|U|487
*
6ZN5|1|2|A|512
6ZN5|1|2|G|513
6ZN5|1|2|U|514

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain J

40S ribosomal protein S9

Chain X

40S ribosomal protein S23

Chain u

Pre-rRNA-processing protein TSR1 homolog