Structure of PDB 8k82 Chain LO

Receptor sequence

>8k82LO (length=197) Species: 4932 (Saccharomyces cerevisiae)

VEPVVVIDGKGHLVGRLASVVAKQLLNGQKIVVVRAEELNISGEFFRNKL
KYHDFLRKATAFNKTRGPFHFRAPSRIFYKALRGMVSHKTARGKAALERL
KVFEGIPPPYDKKKRVVVPQALRVLRLKPGRKYTTLGKLSTSVGWKYEDV
VAKLEAKRKVSSAEYYAKKRAFTKKVASANATAAESDVAKQLAALGY

3D structure

• PDB: 8k82 Structural basis for differential inhibition of eukaryotic ribosomes by tigecycline.
• Chain: LO
• Resolution: 3.0 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	LO	E4 P5 V6 K12 G17 R18 S21 K25 K32 R37 S44 E46 F48 R49 H55 K60 A61 T62 A63 F64 N65 K66 R68 P70 F71 H72 F73 R74 A83 R85 G86 M87 S89 H90 K91 T92 A93 R94 K96 A97 R101 F105 G107 I108 P110 K114 K115 K116 R117 V126 R128 L129 K130 R133 K134 V145 G146 K148 Y149 L156 K159 S164 Y167 Y168 K171	E2 P3 V4 K10 G15 R16 S19 K23 K30 R35 S42 E44 F46 R47 H53 K58 A59 T60 A61 F62 N63 K64 R66 P68 F69 H70 F71 R72 A81 R83 G84 M85 S87 H88 K89 T90 A91 R92 K94 A95 R99 F103 G105 I106 P108 K112 K113 K114 R115 V124 R126 L127 K128 R131 K132 V143 G144 K146 Y147 L154 K157 S162 Y165 Y166 K169

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003729 mRNA binding
• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0000470 maturation of LSU-rRNA
• GO:0002181 cytoplasmic translation
• GO:0017148 negative regulation of translation

Cellular Component

• GO:0005730 nucleolus
• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8k82, PDBe:8k82, PDBj:8k82
• PDBsum: 8k82
• PubMed: 38942792
• UniProt: P26784|RL16A_YEAST Large ribosomal subunit protein uL13A (Gene Name=RPL16A)