Structure of PDB 8fiz Chain BD

Receptor sequence

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

AVVKCKPTSPGRRHVVKVVNPELHKGKPFAPLLEKNSKSGGRNNNGRITT
RHIGGGHKQAYRIVDFKRNKDGIPAVVERLEYDPNRSANIALVLYKDGER
RYILAPKGLKAGDQIQSGVDAAIKPGNTLPMRNIPVGSTVHNVEMKPGKG
GQLARSAGTYVQIVARDGAYVTLRLRSGEMRKVEADCRATLGEVGNAEHM
LRVLGKAGAARWRGVRPTVRGTAMNPVDHPHGGGEGRNFGKHPVTPWGVQ
TKGKKTRSNKRTDKFIVRRRS

3D structure

PDB

8fiz A trailing ribosome speeds up RNA polymerase at the expense of transcript fidelity via force and allostery.

Chain

Resolution

3.8 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	BD	K7 P8 S10 G12 R13 R14 H15 K28 E35 K36 K39 S40 R43 N44 N45 G47 R48 I49 T50 R52 H53 G56 H58 K59 Q60 A61 Y62 R63 I74 Y83 P85 R87 K97 D98 G99 K147 K150 Q153 L154 A155 R156 S157 A158 G159 T160 L176 R177 S178 E180 R182 M201 L205 G206 K207 A208 G209 R212 W213 R214 R217 P218 T219 V220 R221 G222 T223 M225 D229 H232 G235 E236 G237 R238 N239 G241 K242 P244 P247 W248 Q251 K253 K255 T257 R258 R262 T263 K265 R271	K6 P7 S9 G11 R12 R13 H14 K27 E34 K35 K38 S39 R42 N43 N44 G46 R47 I48 T49 R51 H52 G55 H57 K58 Q59 A60 Y61 R62 I73 Y82 P84 R86 K96 D97 G98 K146 K149 Q152 L153 A154 R155 S156 A157 G158 T159 L175 R176 S177 E179 R181 M200 L204 G205 K206 A207 G208 R211 W212 R213 R216 P217 T218 V219 R220 G221 T222 M224 D228 H231 G234 E235 G236 R237 N238 G240 K241 P243 P246 W247 Q250 K252 K254 T256 R257 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: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:8fiz, PDBe:8fiz, PDBj:8fiz
PDBsum	8fiz
PubMed	36931247
UniProt	P60422\|RL2_ECOLI Large ribosomal subunit protein uL2 (Gene Name=rplB)

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