Structure of PDB 8yop Chain LO

Receptor sequence

>8yopLO (length=201) Species: 9606 (Homo sapiens) [Search protein sequence]

EVQVLVLDGRGHLLGRLAAIVAKQVLLGRKVVVVRCEGINISGNFYRNKL
KYLAFLRKRMNTNPSRGPYHFRAPSRIFWRTVRGMLPHKTKRGQAALDRL
KVFDGIPPPYDKKKRMVVPAALKVVRLKPTRKFAYLGRLAHEVGWKYQAV
TATLEEKRKEKAKIHYRKKKQLMRLRKQAEKNVEKKIDKYTEVLKTHGLL
V

3D structure

PDB

8yop Structural basis for differential inhibition of eukaryotic ribosomes by tigecycline.

Chain

Resolution

2.2 Å

3D
structure

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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	V4 R12 G17 R18 A21 K25 R37 S44 Y48 R49 K51 L52 K60 R61 M62 N63 N65 P66 S67 R68 P70 Y71 H72 F73 R74 R82 T83 R85 G86 M87 P89 H90 K91 K93 R94 Q96 F105 D106 G107 I108 P109 D113 K114 K115 K116 R117 V126 V127 R128 L129 K130 P131 R133 E144 V145 K148 Y149 L156 K161 K163 K165 H167 Y168 R169 K171 K172 M175 R176 K179 K188 L202 V203	V2 R10 G15 R16 A19 K23 R35 S42 Y46 R47 K49 L50 K58 R59 M60 N61 N63 P64 S65 R66 P68 Y69 H70 F71 R72 R80 T81 R83 G84 M85 P87 H88 K89 K91 R92 Q94 F103 D104 G105 I106 P107 D111 K112 K113 K114 R115 V124 V125 R126 L127 K128 P129 R131 E142 V143 K146 Y147 L154 K159 K161 K163 H165 Y166 R167 K169 K170 M173 R174 K177 K186 L200 V201

Gene Ontology

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

	Biological Process
GO:0002181	cytoplasmic translation
GO:0006412	translation
GO:0006417	regulation of translation
GO:0017148	negative regulation of translation
GO:0032496	response to lipopolysaccharide
GO:0042592	homeostatic process
GO:0048246	macrophage chemotaxis
GO:0060425	lung morphogenesis
GO:0071346	cellular response to type II interferon
GO:1901194	negative regulation of formation of translation preinitiation complex

	Cellular Component
GO:0005634	nucleus
GO:0005730	nucleolus
GO:0005737	cytoplasm
GO:0005829	cytosol
GO:0005840	ribosome
GO:0005925	focal adhesion
GO:0015934	large ribosomal subunit
GO:0016020	membrane
GO:0022625	cytosolic large ribosomal subunit
GO:0022626	cytosolic ribosome
GO:0045202	synapse
GO:0097452	GAIT complex
GO:1990904	ribonucleoprotein complex

View graph for
Molecular Function

View graph for
Biological Process

View graph for
Cellular Component

External links

PDB	RCSB:8yop, PDBe:8yop, PDBj:8yop
PDBsum	8yop
PubMed	38942792
UniProt	P40429\|RL13A_HUMAN Large ribosomal subunit protein uL13 (Gene Name=RPL13A)

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