Structure of PDB 8cgd Chain d

Receptor sequence

>8cgdd (length=207) Species: 679895 (Escherichia coli BW25113) [Search protein sequence]

IGLVGKKVGMTRIFTEDGVSIPVTVIEVEANRVTQVKDLANDGYRAIQVT
TGAKKANRVTKPEAGHFAKAGVEAGRGLWEFRLAEGEEFTVGQSISVELF
ADVKKVDVTGTSKGKGFAGTVKRWNFRTQDATHGNSLSHRVPGSIGQNQT
PGKVFKGKKMAGQMGNERVTVQSLDVVRVDAERNLLLVKGAVPGATGSDL
IVKPAVK

3D structure

PDB

8cgd Structural conservation of antibiotic interaction with ribosomes.

Chain

Resolution

1.98 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	d	K8 M11 T12 R13 P23 Q36 N42 D43 Y45 Q49 K56 R59 T61 K62 P63 G66 H67 K70 L79 W80 E81 R83 S113 K114 G115 K116 G117 F118 G120 K123 R124 N126 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 L175 K190 A192 V193 P194 G195 A196 T197 K208	K7 M10 T11 R12 P22 Q35 N41 D42 Y44 Q48 K55 R58 T60 K61 P62 G65 H66 K69 L78 W79 E80 R82 S112 K113 G114 K115 G116 F117 G119 K122 R123 N125 F126 R127 T128 Q129 A131 T132 H133 G134 N135 S136 L137 S138 H139 R140 P142 G143 S144 I145 G146 Q147 N148 X149 T150 P151 G152 K153 V154 F155 K156 G157 K158 M160 A161 Q163 N166 R168 V169 T170 Q172 S173 L174 K189 A191 V192 P193 G194 A195 T196 K207

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:8cgd, PDBe:8cgd, PDBj:8cgd
PDBsum	8cgd
PubMed	37550453
UniProt	P60438\|RL3_ECOLI Large ribosomal subunit protein uL3 (Gene Name=rplC)

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