Structure of PDB 8ekc Chain C

Receptor sequence

>8ekcC (length=271) Species: 562 (Escherichia coli) [Search protein sequence]

AVVKCKPTSPGRRHVVKVVNPELHKGKPFAPLLEKNSKSGGRNNNGRITT
RHIGGGHKQAYRIVDFKRNKDGIPAVVERLEYDPNRSANIALVLYKDGER
RYILAPKGLKAGDQIQSGVDAAIKPGNTLPMRNIPVGSTVHNVEMKPGKG
GQLARSAGTYVQIVARDGAYVTLRLRSGEMRKVEADCRATLGEVGNAEHM
LRVLGKAGAARWRGVRPTVRGTAMNPVDHPHGGGEGRNFGKHPVTPWGVQ
TKGKKTRSNKRTDKFIVRRRS

3D structure

PDB

8ekc Insights into the molecular mechanism of translation inhibition by the ribosome-targeting antibiotic thermorubin.

Chain

Resolution

2.7 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	C	K7 P8 G12 R14 H15 E35 K36 S40 G42 R43 N44 N45 N46 G47 R48 T50 T51 R52 H58 K59 Q60 A61 Y62 R63 Y83 D98 R101 K150 Q153 L154 A155 R156 S157 A158 L176 R177 S178 E180 R182 H200 M201 L205 G206 K207 A208 G209 R212 W213 R217 T219 V220 R221 T223 M225 N226 P227 H232 G235 E236 R238 N239 G241 K242 H243 P247 W248 Q251 T252 K253 G254 K255 K256 T257 R258 R262 K265 R270 R271	K6 P7 G11 R13 H14 E34 K35 S39 G41 R42 N43 N44 N45 G46 R47 T49 T50 R51 H57 K58 Q59 A60 Y61 R62 Y82 D97 R100 K149 Q152 L153 A154 R155 S156 A157 L175 R176 S177 E179 R181 H199 M200 L204 G205 K206 A207 G208 R211 W212 R216 T218 V219 R220 T222 M224 N225 P226 H231 G234 E235 R237 N238 G240 K241 H242 P246 W247 Q250 T251 K252 G253 K254 K255 T256 R257 R261 K264 R269 R270
BS02	MG	C	G234 N239 K242	G233 N238 K241

Gene Ontology

	Molecular Function
GO:0003723	RNA binding
GO:0003735	structural constituent of ribosome
GO:0005515	protein binding
GO:0008270	zinc ion binding
GO:0016740	transferase activity
GO:0019843	rRNA binding

	Biological Process
GO:0000027	ribosomal large subunit assembly
GO:0002181	cytoplasmic translation
GO:0006412	translation
GO:0032297	negative regulation of DNA-templated DNA replication initiation

	Cellular Component
GO:0005737	cytoplasm
GO:0005829	cytosol
GO:0005840	ribosome
GO:0015934	large ribosomal subunit
GO:0022625	cytosolic large ribosomal subunit
GO:1990082	DnaA-L2 complex
GO:1990904	ribonucleoprotein complex

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Molecular Function

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Cellular Component

External links

PDB	RCSB:8ekc, PDBe:8ekc, PDBj:8ekc
PDBsum	8ekc
PubMed	36546783
UniProt	P60422\|RL2_ECOLI Large ribosomal subunit protein uL2 (Gene Name=rplB)

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