Structure of PDB 6q8y Chain BI

Receptor sequence

>6q8yBI (length=296) Species: 4932 (Saccharomyces cerevisiae) [Search protein sequence]

AFQKDAKSSAYSSRFQTPFRRRREGKTDYYQRKRLVTQHKAKYNTPKYRL
VVRFTNKDIICQIISSTITGDVVLAAAYSHELPRYGITHGLTNWAAAYAT
GLLIARRTLQKLGLDETYKGVEEVEGEYELTEAVEDGPRPFKVFLDIGLQ
RTTTGARVFGALKGASDGGLYVPHSENRFPGWDFETEEIDPELLRSYIFG
GHVSQYMEELADDDEERFSELFKGYLADDIDADSLEDIYTSAHEAIRADP
AFKPTEKKFTKEQYAAESKKYRQTKLSKEERAARVAAKIAALAGQQ

3D structure

PDB

6q8y Structure of the 80S ribosome-Xrn1 nuclease complex.

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	BI	K8 Y12 R15 F16 Q17 P19 R23 T28 Y31 R35 L36 K43 Y44 K48 L113 R140 P141 F142 F145 L146 I148 L150 R152 T153 H175 S176 N178 R179	K7 Y11 R14 F15 Q16 P18 R22 T27 Y30 R34 L35 K42 Y43 K47 L112 R139 P140 F141 F144 L145 I147 L149 R151 T152 H174 S175 N177 R178
BS02	rna	BI	S13 S14 T18 F20 R21 R22 R24 K27 T28 Y30 R33 R50 R54 T56 N57 K58 Q63 I65 I69 T70 D72 V74 G91 N94 Q151 R152 T155 G156 A157 R158 Y198 H203 Y207 E210 E221 L222 T256 K258 K259 F260 K262 Y265 A266 E268 S269 K270 Y272 K276 L277 K279 R282 R285 V286 K289	S12 S13 T17 F19 R20 R21 R23 K26 T27 Y29 R32 R49 R53 T55 N56 K57 Q62 I64 I68 T69 D71 V73 G90 N93 Q150 R151 T154 G155 A156 R157 Y197 H202 Y206 E209 E220 L221 T255 K257 K258 F259 K261 Y264 A265 E267 S268 K269 Y271 K275 L276 K278 R281 R284 V285 K288

Gene Ontology

	Molecular Function
GO:0003735	structural constituent of ribosome
GO:0005515	protein binding
GO:0008097	5S rRNA binding
GO:0019843	rRNA binding

	Biological Process
GO:0000027	ribosomal large subunit assembly
GO:0002181	cytoplasmic translation
GO:0006412	translation

	Cellular Component
GO:0005634	nucleus
GO:0005737	cytoplasm
GO:0005829	cytosol
GO:0005840	ribosome
GO:0022625	cytosolic large ribosomal subunit
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:6q8y, PDBe:6q8y, PDBj:6q8y
PDBsum	6q8y
PubMed	30911188
UniProt	P26321\|RL5_YEAST Large ribosomal subunit protein uL18 (Gene Name=RPL5)

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