Structure of PDB 6ip8 Chain 2E

Receptor sequence

>6ip82E (length=176) Species: 9606 (Homo sapiens) [Search protein sequence]

QDQGEKENPMRELRIRKLCLNICVGESGDRLTRAAKVLEQLTGQTPVFSK
ARYTVRSFGIRRNEKIAVHCTVRGAKAEEILEKGLKVREYELRKNNFSDT
GNFGFGIQEHIDLGIKYDPSIGIYGLDFYVVLGRPGFSIADKKRRTGCIG
AKHRISKEEAMRWFQQKYDGIILPGK

3D structure

PDB

6ip8 HCV IRES Captures an Actively Translating 80S Ribosome.

Chain

Resolution

3.9 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)
BS01	rna	2E	C21 N23 C25 A53 R54 Y55 F60 N98 D101 G106 G108 G127 D129 Y131 V133 K145	C19 N21 C23 A51 R52 Y53 F58 N96 D99 G104 G106 G125 D127 Y129 V131 K143
BS02	rna	2E	M12 R13 Q46 T47 V49 T73 R75 P137 G138 I141 D143 K144 R147 I151 H155	M10 R11 Q44 T45 V47 T71 R73 P135 G136 I139 D141 K142 R145 I149 H153
BS03	rna	2E	T56 R58 R64	T54 R56 R62

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:6ip8, PDBe:6ip8, PDBj:6ip8
PDBsum	6ip8
PubMed	31080011
UniProt	P62913\|RL11_HUMAN Large ribosomal subunit protein uL5 (Gene Name=RPL11)

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