Structure of PDB 8ir1 Chain A

Receptor sequence

>8ir1A (length=165) Species: 9606 (Homo sapiens) [Search protein sequence]

ELRIRKLCLNICVGESGDRLTRAAKVLEQLTGQTPVFSKARYTVRSFGIR
RNEKIAVHCTVRGAKAEEILEKGLKVREYELRKNNFSDTGNFGFGIQEHI
DLGIKYDPSIGIYGLDFYVVLGRPGFSIADKKRRTGCIGAKHRISKEEAM
RWFQQKYDGIILPGK

3D structure

PDB

8ir1 Visualizing the nucleoplasmic maturation of human pre-60S ribosomal particles.

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	A	K19 C21 C25 S51 A53 R54 F60 R64 N97 N98 S100 D101 T102 G106 F107 G108 Q110 K118 G127 D129 Y131 K145	K6 C8 C12 S38 A40 R41 F47 R51 N84 N85 S87 D88 T89 G93 F94 G95 Q97 K105 G114 D116 Y118 K132
BS02	rna	A	Q46 T47 V49 C72 T73 R75 G138 S140 I141 D143 K144 K145 R147 I151 K154 H155	Q33 T34 V36 C59 T60 R62 G125 S127 I128 D130 K131 K132 R134 I138 K141 H142

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:8ir1, PDBe:8ir1, PDBj:8ir1
PDBsum	8ir1
PubMed	37491604
UniProt	P62913\|RL11_HUMAN Large ribosomal subunit protein uL5 (Gene Name=RPL11)

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