Structure of PDB 8ifc Chain d

Receptor sequence

>8ifcd (length=209) Species: 562 (Escherichia coli) [Search protein sequence]

MIGLVGKKVGMTRIFTEDGVSIPVTVIEVEANRVTQVKDLANDGYRAIQV
TTGAKKANRVTKPEAGHFAKAGVEAGRGLWEFRLAEGEEFTVGQSISVEL
FADVKKVDVTGTSKGKGFAGTVKRWNFRTQDATHGNSLSHRVPGSIGQNQ
TPGKVFKGKKMAGQMGNERVTVQSLDVVRVDAERNLLLVKGAVPGATGSD
LIVKPAVKA

3D structure

PDB

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

Chain

Resolution

2.9 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	d	M11 P23 Q36 N42 D43 Y45 Q49 K56 R59 T61 K62 P63 G66 H67 K70 L79 E81 R83 S113 K114 G115 K116 G117 F118 G120 R124 F127 R128 T129 Q130 A132 T133 H134 G135 N136 S137 L138 S139 H140 R141 P143 G144 S145 I146 G147 Q148 N149 X150 T151 P152 G153 K154 V155 F156 K157 G158 K159 M161 A162 Q164 N167 R169 V170 T171 Q173 S174 K190 A192 V193 P194 G195 K208	M11 P23 Q36 N42 D43 Y45 Q49 K56 R59 T61 K62 P63 G66 H67 K70 L79 E81 R83 S113 K114 G115 K116 G117 F118 G120 R124 F127 R128 T129 Q130 A132 T133 H134 G135 N136 S137 L138 S139 H140 R141 P143 G144 S145 I146 G147 Q148 N149 X150 T151 P152 G153 K154 V155 F156 K157 G158 K159 M161 A162 Q164 N167 R169 V170 T171 Q173 S174 K190 A192 V193 P194 G195 K208
BS02	MG	d	K123 R141	K123 R141
BS03	MG	d	T121 V122 R141	T121 V122 R141

Gene Ontology

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

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

	Cellular Component
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:8ifc, PDBe:8ifc, PDBj:8ifc
PDBsum	8ifc
PubMed	38227611
UniProt	P60438\|RL3_ECOLI Large ribosomal subunit protein uL3 (Gene Name=rplC)

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