Structure of PDB 8k2a Chain LD

Receptor sequence

>8k2aLD (length=250) Species: 9606 (Homo sapiens)

EPVLRKVELPVPTHRRPVQAWVESLRGFEQERVGLADLHPDVFATAPRLD
ILHQVAMWQKNFKRISYAKTKTRAEVRGGGRKPWPQKGTGRARHGSIRSP
LWRGGGVAHGPRGPTSYYYMLPMKVRALGLKVALTVKLAQDDLHIMDSLE
LPTGDPQYLTELAHYRRWGDSVLLVDLTHEEMPQSIVEATSRLKTFNLIP
AVGLNVHSMLKHQTLVLTLPTVAFLEDKLLWQDSRYRPLYPFSLPYSDFP

3D structure

• PDB: 8k2a Structural basis for differential inhibition of eukaryotic ribosomes by tigecycline.
• Chain: LD
• Resolution: 2.9 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	LD	R92 I95 H97 M101 K104 N105 R108 Y111 T114 K115 R117 A118 V120 R121 G122 R125 K126 Q130 K131 G132 T133 G134 R135 A136 R137 H138 G139 R142 P144 L145 W146 R147 G148 V151 H153 P155 P158 Y161 Y163 M164 P166 M167 K168 V169 R170 K255 R281 P285 L288	R48 I51 H53 M57 K60 N61 R64 Y67 T70 K71 R73 A74 V76 R77 G78 R81 K82 Q86 K87 G88 T89 G90 R91 A92 R93 H94 G95 R98 P100 L101 W102 R103 G104 V107 H109 P111 P114 Y117 Y119 M120 P122 M123 K124 V125 R126 K211 R237 P241 L244

Gene Ontology

Molecular Function

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

Biological Process

• GO:0032543 mitochondrial translation

Cellular Component

• GO:0005739 mitochondrion
• GO:0005743 mitochondrial inner membrane
• GO:0005762 mitochondrial large ribosomal subunit
• GO:0005840 ribosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8k2a, PDBe:8k2a, PDBj:8k2a
• PDBsum: 8k2a
• PubMed: 38942792
• UniProt: Q9BYD3|RM04_HUMAN Large ribosomal subunit protein uL4m (Gene Name=MRPL4)