HL_9NPY_004

3D structure

PDB id

9NPY (explore in PDB, NAKB, or RNA 3D Hub)

Description

SARS-CoV-2 nsp1 bound to the Rhinolophus lepidus 40S ribosome (local refinement of the 40S head)

Experimental method

ELECTRON MICROSCOPY

Resolution

2.1 Å

Loop

Sequence

G(PSU)UAAUUC

Length

8 nucleotides

Bulged bases

9NPY|1|i|U|1371

QA status

Modified nucleotides: PSU

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

HL_9NPY_004 not in the Motif Atlas

Geometric match to HL_8P9A_218

Geometric discrepancy: 0.0806

The information below is about HL_8P9A_218

Detailed Annotation

T-loop related

Broad Annotation

T-loop

Motif group

HL_63894.3

Basepair signature

cWW-cWW-F-F-F

Number of instances in this motif group

22

Unit IDs

9NPY|1|i|G|1366
9NPY|1|i|PSU|1367
9NPY|1|i|U|1368
9NPY|1|i|A|1369
9NPY|1|i|A|1370
9NPY|1|i|U|1371
9NPY|1|i|U|1372
9NPY|1|i|C|1373

Current chains

Chain i

18S ribosomal RNA

Nearby chains

Chain R

40S ribosomal protein eS17, RPS17