Structure of PDB 8y0x Chain LJ

Receptor sequence

>8y0xLJ (length=172) Species: 9606 (Homo sapiens) [Search protein sequence]

QDQGEKENPMRELRIRKLCLNICVGESGDRLTRAAKVLEQLTGQTPVFSK
ARYTVRSFGIRRNEKIAVHCTVRGAKAEEILEKGLKVREYELRKNNFSDT
GNFGFGIQEHIDYDPSIGIYGLDFYVVLGRPGFSIADKKRRTGCIGAKHR
ISKEEAMRWFQQKYDGIILPGK

3D structure

PDB

8y0x The global structure of dormant ribosome

Chain

Resolution

3.3 Å

3D
structure

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Enzymatic activity

Enzyme Commision number

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	LJ	K19 C21 N23 C25 S51 A53 R54 F60 N97 N98 S100 D101 N104 G106 F107 G108 G127 L128 D129 Y131	K17 C19 N21 C23 S49 A51 R52 F58 N95 N96 S98 D99 N102 G104 F105 G106 G121 L122 D123 Y125
BS02	rna	LJ	K8 M12 R13 Q46 T47 T73 R75 P137 G138 I141 D143 K145 C150 I151 K154 H155	K6 M10 R11 Q44 T45 T71 R73 P131 G132 I135 D137 K139 C144 I145 K148 H149

Gene Ontology

	Molecular Function
GO:0003723	RNA binding
GO:0003735	structural constituent of ribosome
GO:0005515	protein binding
GO:0008097	5S rRNA binding
GO:0019843	rRNA binding
GO:0031625	ubiquitin protein ligase binding
GO:1990948	ubiquitin ligase inhibitor activity

	Biological Process
GO:0000027	ribosomal large subunit assembly
GO:0002181	cytoplasmic translation
GO:0006364	rRNA processing
GO:0006412	translation
GO:0006605	protein targeting
GO:0010628	positive regulation of gene expression
GO:0032092	positive regulation of protein binding
GO:0032435	negative regulation of proteasomal ubiquitin-dependent protein catabolic process
GO:0034504	protein localization to nucleus
GO:0042273	ribosomal large subunit biogenesis
GO:0050821	protein stabilization
GO:1901796	regulation of signal transduction by p53 class mediator
GO:1901798	positive regulation of signal transduction by p53 class mediator
GO:1904667	negative regulation of ubiquitin protein ligase activity
GO:2000059	negative regulation of ubiquitin-dependent protein catabolic process
GO:2000435	negative regulation of protein neddylation

	Cellular Component
GO:0005634	nucleus
GO:0005654	nucleoplasm
GO:0005730	nucleolus
GO:0005737	cytoplasm
GO:0005829	cytosol
GO:0005840	ribosome
GO:0016020	membrane
GO:0022625	cytosolic large ribosomal subunit
GO:0022626	cytosolic ribosome
GO:0032991	protein-containing complex
GO:0070062	extracellular exosome
GO:1990904	ribonucleoprotein complex

View graph for
Molecular Function

View graph for
Biological Process

View graph for
Cellular Component

External links

PDB	RCSB:8y0x, PDBe:8y0x, PDBj:8y0x
PDBsum	8y0x
PubMed	38698775
UniProt	P62913\|RL11_HUMAN Large ribosomal subunit protein uL5 (Gene Name=RPL11)

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