Structure of PDB 8yop Chain LF

Receptor sequence

>8yopLF (length=225) Species: 9606 (Homo sapiens) [Search protein sequence]

NFAELKIKRLRKKFAQKMLRKARRKLIYEKAKHYHKEYRQMYRTEIRMAR
MARKAGNFYVPAEPKLAFVIRIRGINGVSPKVRKVLQLLRLRQIFNGTFV
KLNKASINMLRIVEPYIAWGYPNLKSVNELIYKRGYGKINKKRIALTDNA
LIARSLGKYGIICMEDLIHEIYTVGKRFKEANNFLWPFKLSSPRGGMKKK
TTHFVEGGDAGNREDQINRLIRRMN

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	LF	F25 E27 K31 R32 R34 K35 F37 Q39 R43 R46 R47 K48 Y51 E52 H58 K59 Y61 R62 Y65 R66 I69 R70 M71 R73 M74 R76 A78 R96 G97 I98 N99 G100 P103 K104 K107 V108 L111 R113 Q116 I117 K124 K127 A128 N131 I135 L147 K148 N151 K156 R157 K164 K165 R166 A176 R177 G180 Y182 I185 E188 R200 K202 N206 K212 L213 S214 S215 R217 G218 G219 M220 K222 K223 R242	F2 E4 K8 R9 R11 K12 F14 Q16 R20 R23 R24 K25 Y28 E29 H35 K36 Y38 R39 Y42 R43 I46 R47 M48 R50 M51 R53 A55 R73 G74 I75 N76 G77 P80 K81 K84 V85 L88 R90 Q93 I94 K101 K104 A105 N108 I112 L124 K125 N128 K133 R134 K141 K142 R143 A153 R154 G157 Y159 I162 E165 R177 K179 N183 K189 L190 S191 S192 R194 G195 G196 M197 K199 K200 R219
BS02	rna	LF	R134 E137 K222 T224 H226 V228 E229	R111 E114 K199 T201 H203 V205 E206

Gene Ontology

	Molecular Function
GO:0003677	DNA binding
GO:0003723	RNA binding
GO:0003729	mRNA binding
GO:0003735	structural constituent of ribosome
GO:0005515	protein binding
GO:0042802	identical protein binding

	Biological Process
GO:0000463	maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
GO:0002181	cytoplasmic translation
GO:0006364	rRNA processing
GO:0006412	translation
GO:0042273	ribosomal large subunit biogenesis

	Cellular Component
GO:0005634	nucleus
GO:0005730	nucleolus
GO:0005737	cytoplasm
GO:0005829	cytosol
GO:0005840	ribosome
GO:0005925	focal adhesion
GO:0014069	postsynaptic density
GO:0016020	membrane
GO:0022625	cytosolic large ribosomal subunit
GO:0022626	cytosolic ribosome
GO:1990904	ribonucleoprotein complex

View graph for
Molecular Function

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Biological Process

View graph for
Cellular Component

External links

PDB	RCSB:8yop, PDBe:8yop, PDBj:8yop
PDBsum	8yop
PubMed	38942792
UniProt	P18124\|RL7_HUMAN Large ribosomal subunit protein uL30 (Gene Name=RPL7)

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