Structure of PDB 6zmi Chain LP

Receptor sequence

>6zmiLP (length=153) Species: 9606 (Homo sapiens)

VRYSLDPENPTKSCKSRGSNLRVHFKNTRETAQAIKGMHIRKATKYLKDV
TLQKQCVPFRRYNGGVGRCAQAKQWGWTQGRWPKKSAEFLLHMLKNAESN
AELKGLDVDSLVIEHIQVNKAPKMRRRTYRAHGRINPYMSSPCHIEMILT
EKE

3D structure

• PDB: 6zmi Structural basis for translational shutdown and immune evasion by the Nsp1 protein of SARS-CoV-2.
• Chain: LP
• Resolution: 2.6 Å

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	rna	LP	R3 Y4 L6 K16 R18 G19 S20 R23 H25 F26 K27 R30 Q34 K37 K43 R62 Y63 N64 G65 G66 G68 R69 Q72 K74 Q75 W78 Q80 R82 W83 P84 K86 N97 S100 N101 Q118 V119 R127 T129 Y130 R131 A132 H133 G134 R135 N137 P138 Y139 M140 S141 S142	R2 Y3 L5 K15 R17 G18 S19 R22 H24 F25 K26 R29 Q33 K36 K42 R61 Y62 N63 G64 G65 G67 R68 Q71 K73 Q74 W77 Q79 R81 W82 P83 K85 N96 S99 N100 Q117 V118 R126 T128 Y129 R130 A131 H132 G133 R134 N136 P137 Y138 M139 S140 S141
BS02	rna	LP	R3 S5 R61 R62 W78 N120 K121 P123 H145	R2 S4 R60 R61 W77 N119 K120 P122 H144

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0005515 protein binding

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006412 translation

Cellular Component

• GO:0005634 nucleus
• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0015934 large ribosomal subunit
• GO:0022625 cytosolic large ribosomal subunit
• GO:0022626 cytosolic ribosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:6zmi, PDBe:6zmi, PDBj:6zmi
• PDBsum: 6zmi
• PubMed: 32680882
• UniProt: P18621|RL17_HUMAN Large ribosomal subunit protein uL22 (Gene Name=RPL17)