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
AUUGCAAUUAUU
Length
12 nucleotides
Bulged bases
9NPY|1|i|U|1621, 9NPY|1|i|U|1622, 9NPY|1|i|A|1623
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_008 not in the Motif Atlas
Geometric match to HL_8P9A_222
Geometric discrepancy: 0.1341
The information below is about HL_8P9A_222
Detailed Annotation
No text annotation
Broad Annotation
No text annotation
Motif group
HL_50951.1
Basepair signature
cWW-F-F-tWH-F-F-F
Number of instances in this motif group
5

Unit IDs

9NPY|1|i|A|1614
9NPY|1|i|U|1615
9NPY|1|i|U|1616
9NPY|1|i|G|1617
9NPY|1|i|C|1618
9NPY|1|i|A|1619
9NPY|1|i|A|1620
9NPY|1|i|U|1621
9NPY|1|i|U|1622
9NPY|1|i|A|1623
9NPY|1|i|U|1624
9NPY|1|i|U|1625

Current chains

Chain i
18S ribosomal RNA

Nearby chains

Chain O
40S ribosomal protein uS19, RPS15
Chain S
40S ribosomal protein uS13, RPS18
Chain T
40S ribosomal protein eS19, RPS19
Chain d
40S ribosomal protein uS14, RPS29

Coloring options:


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