IL_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

CC(PSU)*GCG

Length

6 nucleotides

Bulged bases

None detected

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

IL_9NPY_002 not in the Motif Atlas

Geometric match to IL_8P9A_432

Geometric discrepancy: 0.0949

The information below is about IL_8P9A_432

Detailed Annotation

Isolated non-canonical cWW pair

Broad Annotation

No text annotation

Motif group

IL_01003.4

Basepair signature

cWW-cWW-cWW

Number of instances in this motif group

215

Unit IDs

9NPY|1|i|C|1230
9NPY|1|i|C|1231
9NPY|1|i|PSU|1232
*
9NPY|1|i|G|1526
9NPY|1|i|C|1527
9NPY|1|i|G|1528

Current chains

Chain i

18S ribosomal RNA

Nearby chains

Chain Q

40S ribosomal protein uS9, RPS16

Chain S

40S ribosomal protein uS13, RPS18

Chain T

40S ribosomal protein eS19, RPS19