Structure of PDB 8rpz Chain C

Receptor sequence

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

AVVKCKPTSPGRRHVVKVVNPELHKGKPFAPLLEKNSKSGGRNNNGRITT
RHIGGGHKQAYRIVDFKRNKDGIPAVVERLEYDPNRSANIALVLYKDGER
RYILAPKGLKAGDQIQSGVDAAIKPGNTLPMRNIPVGSTVHNVEMKPGKG
GQLARSAGTYVQIVARDGAYVTLRLRSGEMRKVEADCRATLGEVGNAEHM
LRVLGKAGAARWRGVRPTVRGTAMNPVDHPHGGGEGRNFGKHPVTPWGVQ
TKGKKTRSNKRTDKFIVRRRS

3D structure

PDB

8rpz Multimodal binding and inhibition of bacterial ribosomes by the antimicrobial peptides Api137 and Api88.

Chain

Resolution

2.44 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	K6 P7 T8 P10 G11 R12 R13 H14 K35 K38 S39 G41 R42 N43 N44 N45 G46 R47 I48 T49 T50 R51 H52 G55 H57 K58 Q59 Y61 R62 I73 Y82 P84 R86 K96 D97 G98 E99 R100 K146 K149 Q152 L153 A154 R155 S156 A157 G158 Y170 L175 R176 S177 E179 R181 A197 M200 V203 G205 K206 A207 G208 R211 W212 R213 R216 P217 T218 V219 R220 G221 T222 A223 M224 N225 V227 D228 H229 H231 G233 G234 E235 G236 R237 N238 G240 K241 H242 P243 T245 P246 W247 K252 G253 K254 K255 T256 R257 K260 R261 T262 K264 R270	K6 P7 T8 P10 G11 R12 R13 H14 K35 K38 S39 G41 R42 N43 N44 N45 G46 R47 I48 T49 T50 R51 H52 G55 H57 K58 Q59 Y61 R62 I73 Y82 P84 R86 K96 D97 G98 E99 R100 K146 K149 Q152 L153 A154 R155 S156 A157 G158 Y170 L175 R176 S177 E179 R181 A197 M200 V203 G205 K206 A207 G208 R211 W212 R213 R216 P217 T218 V219 R220 G221 T222 A223 M224 N225 V227 D228 H229 H231 G233 G234 E235 G236 R237 N238 G240 K241 H242 P243 T245 P246 W247 K252 G253 K254 K255 T256 R257 K260 R261 T262 K264 R270

Gene Ontology

	Molecular Function
GO:0003723	RNA binding
GO:0003735	structural constituent of ribosome
GO:0005515	protein binding
GO:0008270	zinc ion binding
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:0022625	cytosolic large ribosomal subunit
GO:1990082	DnaA-L2 complex
GO:1990904	ribonucleoprotein complex

View graph for
Molecular Function

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Biological Process

View graph for
Cellular Component

External links

PDB	RCSB:8rpz, PDBe:8rpz, PDBj:8rpz
PDBsum	8rpz
PubMed	38730238
UniProt	P60422\|RL2_ECOLI Large ribosomal subunit protein uL2 (Gene Name=rplB)

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