HL_9NPY_002

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

AUUGAUAGCU

Length

10 nucleotides

Bulged bases

9NPY|1|i|U|1300, 9NPY|1|i|G|1302

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

HL_9NPY_002 not in the Motif Atlas

Geometric match to HL_8CRE_217

Geometric discrepancy: 0.1413

The information below is about HL_8CRE_217

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_81538.2

Basepair signature

cWW-tSH-F-F-F-F

Number of instances in this motif group

16

Unit IDs

9NPY|1|i|A|1295
9NPY|1|i|U|1296
9NPY|1|i|U|1297
9NPY|1|i|G|1298
9NPY|1|i|A|1299
9NPY|1|i|U|1300
9NPY|1|i|A|1301
9NPY|1|i|G|1302
9NPY|1|i|C|1303
9NPY|1|i|U|1304

Current chains

Chain i

18S ribosomal RNA

Nearby chains

Chain O

40S ribosomal protein uS19, RPS15

Chain b

40S ribosomal protein eS31, RPS27a

Chain d

40S ribosomal protein uS14, RPS29