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
UGG*UCUGUGA
Length
10 nucleotides
Bulged bases
9NPY|1|i|U|1494, 9NPY|1|i|G|1497
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
IL_9NPY_012 not in the Motif Atlas
Geometric match to IL_8P9A_440
Geometric discrepancy: 0.1088
The information below is about IL_8P9A_440
Detailed Annotation
No text annotation
Broad Annotation
No text annotation
Motif group
IL_49061.1
Basepair signature
cWW-L-R-L-cWW-L
Number of instances in this motif group
6

Unit IDs

9NPY|1|i|U|1333
9NPY|1|i|G|1334
9NPY|1|i|G|1335
*
9NPY|1|i|U|1492
9NPY|1|i|C|1493
9NPY|1|i|U|1494
9NPY|1|i|G|1495
9NPY|1|i|U|1496
9NPY|1|i|G|1497
9NPY|1|i|A|1498

Current chains

Chain i
18S ribosomal RNA

Nearby chains

Chain B
40S ribosomal protein uS3, RPS3
Chain J
40S ribosomal protein eS10, RPS10
Chain U
40S ribosomal protein uS10, RPS20
Chain d
40S ribosomal protein uS14, RPS29

Coloring options:


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