Structure of PDB 6om0 Chain F

Receptor sequence

>6om0F (length=294) Species: 9606 (Homo sapiens) [Search protein sequence]

VKVVKNKAYFKRYQVKFRRRREGKTDYYARKRLVIQDKNKYNTPKYRMIV
RVTNRDIICQIAYARIEGDMIVCAAYAHELPKYGVKVGLTNYAAAYCTGL
LLARRLLNRFGMDKIYEGQVEVTGDEYNVESIDGQPGAFTCYLDAGLART
TTGNKVFGALKGAVDGGLSIPHSTKRFPGYDSESKEFNAEVHRKHIMGQN
VADYMRYLMEEDEDAYKKQFSQYIKNSVTPDMMEEMYKKAHAAIRENPVY
EKKPKKEVKKKRWNRPKMSLAQKKDRVAQKKASFLRAQERAAES

3D structure

PDB

6om0 Structural basis for selective stalling of human ribosome nascent chain complexes by a drug-like molecule.

Chain

Resolution

3.1 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	F	F13 K14 Y16 F20 R21 R22 R24 T28 Y30 R33 I52 R54 T56 N57 R58 I61 Q63 E70 G71 D72 M73 I74 Y79 T93 N94 R152 T154 T155 G156 N157 K158 V204 Y207 Y210 K221 Q222 F223 S224 Y253 K255 K256 V261 K264 W266 N267 R268 K270 M271 L273 R279	F10 K11 Y13 F17 R18 R19 R21 T25 Y27 R30 I49 R51 T53 N54 R55 I58 Q60 E67 G68 D69 M70 I71 Y76 T90 N91 R149 T151 T152 G153 N154 K155 V201 Y204 Y207 K218 Q219 F220 S221 Y250 K252 K253 V258 K261 W263 N264 R265 K267 M268 L270 R276
BS02	rna	F	V4 K5 V7 K8 Y12 K14 R15 Y16 Q17 K19 R23 G26 T28 D29 Y31 R35 L36 K43 Y44 N45 F113 M115 G140 A141 Y145 L150 R152 F160 P174 H175 R179 R268 S272 A274 Q275 D278 R279 Q282 K283 R289 A290	V1 K2 V4 K5 Y9 K11 R12 Y13 Q14 K16 R20 G23 T25 D26 Y28 R32 L33 K40 Y41 N42 F110 M112 G137 A138 Y142 L147 R149 F157 P171 H172 R176 R265 S269 A271 Q272 D275 R276 Q279 K280 R286 A287

Gene Ontology

	Molecular Function
GO:0003723	RNA binding
GO:0003730	mRNA 3'-UTR 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:0048027	mRNA 5'-UTR 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:0010628	positive regulation of gene expression
GO:0042273	ribosomal large subunit biogenesis
GO:0045727	positive regulation of translation
GO:0050821	protein stabilization
GO:1901796	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:0005783	endoplasmic reticulum
GO:0005829	cytosol
GO:0005840	ribosome
GO:0005925	focal adhesion
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

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Molecular Function

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Biological Process

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Cellular Component

External links

PDB	RCSB:6om0, PDBe:6om0, PDBj:6om0
PDBsum	6om0
PubMed	31160784
UniProt	P46777\|RL5_HUMAN Large ribosomal subunit protein uL18 (Gene Name=RPL5)

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