J3_6ZN5_002

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

AGAG*CAG*CUGGAU

Length

13 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_6ZN5_002 not in the Motif Atlas

Homologous match to J3_4V88_032

Geometric discrepancy: 0.2008

The information below is about J3_4V88_032

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_54972.1

Basepair signature

cWW-tWW-F-cWW-F-tHS-F-cWW

Number of instances in this motif group

2

Unit IDs

6ZN5|1|2|A|816
6ZN5|1|2|G|817
6ZN5|1|2|A|818
6ZN5|1|2|G|819
*
6ZN5|1|2|C|829
6ZN5|1|2|A|830
6ZN5|1|2|G|831
*
6ZN5|1|2|C|843
6ZN5|1|2|U|844
6ZN5|1|2|G|845
6ZN5|1|2|G|846
6ZN5|1|2|A|847
6ZN5|1|2|U|848

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain E

40S ribosomal protein S4, X isoform

Chain J

40S ribosomal protein S9

Chain Y

40S ribosomal protein S24