Structure of PDB 8ifd Chain 1D

Receptor sequence

>8ifd1D (length=248) Species: 9606 (Homo sapiens) [Search protein sequence]

GRVIRGQRKGAGSVFRAHVKHRKGAARLRAVDFAERHGYIKGIVKDIIHD
PGRGAPLAKVVFRDPYRFKKRTELFIAAEGIHTGQFVYCGKKAQLNIGNV
LPVGTMPEGTIVCCLEEKPGDRGKLARASGNYATVISHNPETKKTRVKLP
SGSKKVISSANRAVVGVVAGGGRIDKPILKAGRAYHKYKAKRNCWPRVRG
VAMNPVEHPFGGGNHQHIGKPSTIRRDAPAGRKVGLIAARRTGRLRGT

3D structure

PDB

8ifd Direct visualization of ribosomes in the cell-free system revealed the functional evolution of aminoglycoside.

Chain

Resolution

2.59 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	1D	G2 R3 V4 G7 Q8 R9 K10 G11 S14 R17 A18 H19 V20 K21 H22 R23 G25 A31 F34 R37 H38 G39 Y40 I44 K46 H50 P52 R54 R64 Y67 R68 F69 K70 R72 G85 F87 Y89 A94 Q95 E118 K119 R123 K125 L126 A127 R128 A129 S130 G131 N132 L150 P151 S152 S154 K156 G172 R174 I175 K177 I179 L180 K181 A182 G183 Y186 H187 K188 K192 R193 N194 W196 R198 V199 R200 G201 V202 A203 M204 N205 V207 E208 H209 F211 G213 G214 N215 H216 Q217 H218 G220 K221 P222 S223 T224 R226 R227 P230 A231 G232 R233 K234 V235 G236 L237 I238 A239 A240 R241 R242 T243 G244 R245	G1 R2 V3 G6 Q7 R8 K9 G10 S13 R16 A17 H18 V19 K20 H21 R22 G24 A30 F33 R36 H37 G38 Y39 I43 K45 H49 P51 R53 R63 Y66 R67 F68 K69 R71 G84 F86 Y88 A93 Q94 E117 K118 R122 K124 L125 A126 R127 A128 S129 G130 N131 L149 P150 S151 S153 K155 G171 R173 I174 K176 I178 L179 K180 A181 G182 Y185 H186 K187 K191 R192 N193 W195 R197 V198 R199 G200 V201 A202 M203 N204 V206 E207 H208 F210 G212 G213 N214 H215 Q216 H217 G219 K220 P221 S222 T223 R225 R226 P229 A230 G231 R232 K233 V234 G235 L236 I237 A238 A239 R240 R241 T242 G243 R244
BS02	MG	1D	F211 G212 G213	F210 G211 G212

Gene Ontology

	Molecular Function
GO:0003723	RNA binding
GO:0003735	structural constituent of ribosome
GO:0005515	protein binding
GO:0019843	rRNA binding

	Biological Process
GO:0002181	cytoplasmic translation
GO:0006412	translation

	Cellular Component
GO:0005654	nucleoplasm
GO:0005737	cytoplasm
GO:0005829	cytosol
GO:0005840	ribosome
GO:0005925	focal adhesion
GO:0014069	postsynaptic density
GO:0015934	large ribosomal subunit
GO:0016020	membrane
GO:0022625	cytosolic large ribosomal subunit
GO:0022626	cytosolic ribosome
GO:0045202	synapse
GO:0098794	postsynapse
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:8ifd, PDBe:8ifd, PDBj:8ifd
PDBsum	8ifd
PubMed	38227611
UniProt	P62917\|RL8_HUMAN Large ribosomal subunit protein uL2 (Gene Name=RPL8)

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