Structure of PDB 6zmo Chain LT

Receptor sequence

>6zmoLT (length=159) Species: 9606 (Homo sapiens)

TNTKGKRRGTRYMFSRPFRKHGVVPLATYMRIYKKGDIVDIKGMGTVQKG
MPHKCYHGKTGRVYNVTQHAVGIVVNKQVKGKILAKRINVRIEHIKHSKS
RDSFLKRVKENDQKKKEAKEKGTWVQLKRQPAPPREAHFVRTNGKEPELL
EPIPYEFMA

3D structure

• PDB: 6zmo Structural basis for translational shutdown and immune evasion by the Nsp1 protein of SARS-CoV-2.
• Chain: LT
• Resolution: 3.1 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	LT	T2 N3 T4 K5 G6 K7 R8 R9 G10 R12 Y13 M14 S16 R17 F19 H22 G23 K35 K43 G46 T47 Q49 G51 H54 K55 Y57 H58 G59 K60 T61 T68 Q69 H70 N77 K78 V80 K83 L85 K87 R88 R92 F105 N112 D113 K116 W125 V126 L128 K129 R130 R142	T1 N2 T3 K4 G5 K6 R7 R8 G9 R11 Y12 M13 S15 R16 F18 H21 G22 K34 K42 G45 T46 Q48 G50 H53 K54 Y56 H57 G58 K59 T60 T67 Q68 H69 N76 K77 V79 K82 L84 K86 R87 R91 F104 N111 D112 K115 W124 V125 L127 K128 R129 R141
BS02	rna	LT	R20 L27 A28	R19 L26 A27

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:0005737 cytoplasm
• GO:0005783 endoplasmic reticulum
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0016020 membrane
• GO:0022625 cytosolic large ribosomal subunit
• GO:0022626 cytosolic ribosome
• GO:0045202 synapse
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:6zmo, PDBe:6zmo, PDBj:6zmo
• PDBsum: 6zmo
• PubMed: 32680882
• UniProt: P46778|RL21_HUMAN Large ribosomal subunit protein eL21 (Gene Name=RPL21)