Structure of PDB 8fl6 Chain SB

Receptor sequence

>8fl6SB (length=275) Species: 9606 (Homo sapiens) [Search protein sequence]

VVKNKAYFKRYQVKFRRRREGKTDYYARKRLVIQDKNKYNTPKYRMIVRV
TNRDIICQIAYARIEGDMIVCAAYAHELPKYGVKVGLTNYAAAYCTGLLL
ARRLLNRFGMDKIYEGQVEVTGDEYNVESIDGQPGAFTCYLDAGLARTTT
GNKVFGALKGAVDGGLSIPHSTKRFPGYDSESKEFNAEVHRKHIMGQNVA
DYMRYLMEEDEDAYKKQFSQYIKNSVTPDMMEEMYKKAHAAIRENPVYEK
KPKKEVKKKRWNRPKMSLAQKKDRV

3D structure

PDB

8fl6 Principles of human pre-60 S biogenesis.

Chain

Resolution

2.62 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	SB	K8 Y12 R15 Y16 Q17 K19 R23 T28 D29 Y31 R35 K43 Y44 K48 F113 M115 P139 G140 F142 Y145 R152 T153 P174 S176 R179 S272 A274 Q275 D278 R279	K3 Y7 R10 Y11 Q12 K14 R18 T23 D24 Y26 R30 K38 Y39 K43 F108 M110 P134 G135 F137 Y140 R147 T148 P169 S171 R174 S267 A269 Q270 D273 R274
BS02	rna	SB	K8 K10 F13 K14 V18 F20 R21 R22 R24 T28 Y30 R33 R50 R54 T56 N57 R58 I61 Q63 I69 D72 M73 I74 N94 Y95 R152 T155 G156 N157 K158 N203 V204 Y207 K221 Q222 F223 S224 Q225 Y226 Y253 K255 K256 K258 V261 W266 N267 R268 K270 M271 L273 K276 R279	K3 K5 F8 K9 V13 F15 R16 R17 R19 T23 Y25 R28 R45 R49 T51 N52 R53 I56 Q58 I64 D67 M68 I69 N89 Y90 R147 T150 G151 N152 K153 N198 V199 Y202 K216 Q217 F218 S219 Q220 Y221 Y248 K250 K251 K253 V256 W261 N262 R263 K265 M266 L268 K271 R274

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:8fl6, PDBe:8fl6, PDBj:8fl6
PDBsum	8fl6
PubMed	37410842
UniProt	P46777\|RL5_HUMAN Large ribosomal subunit protein uL18 (Gene Name=RPL5)

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