Structure of PDB 6vwm Chain A

Receptor sequence

>6vwmA (length=271) Species: 562 (Escherichia coli) [Search protein sequence]

AVVKCKPTSPGRRHVVKVVNPELHKGKPFAPLLEKNSKSGGRNNNGRITT
RHIGGGHKQAYRIVDFKRNKDGIPAVVERLEYDPNRSANIALVLYKDGER
RYILAPKGLKAGDQIQSGVDAAIKPGNTLPMRNIPVGSTVHNVEMKPGKG
GQLARSAGTYVQIVARDGAYVTLRLRSGEMRKVEADCRATLGEVGNAEHM
LRVLGKAGAARWRGVRPTVRGTAMNPVDHPHGGGEGRNFGKHPVTPWGVQ
TKGKKTRSNKRTDKFIVRRRS

3D structure

PDB

6vwm mRNA stem-loops can pause the ribosome by hindering A-site tRNA binding.

Chain

Resolution

3.4 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	A	K6 P7 S9 P10 G11 R12 R13 H14 E34 K35 N36 S39 G41 R42 N43 N44 N45 G46 R47 I48 T49 T50 R51 H52 G55 H57 K58 Q59 A60 Y61 R62 Y82 P84 R86 D97 G98 R100 K146 P147 G148 K149 Q152 L153 A154 R155 S156 A157 G158 Y170 L175 R176 S177 E179 R181 A197 H199 M200 L204 G205 K206 A207 G208 R211 W212 R213 R216 P217 T218 V219 R220 G221 T222 A223 M224 N225 V227 D228 H229 H231 G233 G234 E235 R237 G240 K241 H242 P243 P246 W247 T251 K252 G253 K255 T256 R257 K260 R261 T262 F265 R269 R270	K6 P7 S9 P10 G11 R12 R13 H14 E34 K35 N36 S39 G41 R42 N43 N44 N45 G46 R47 I48 T49 T50 R51 H52 G55 H57 K58 Q59 A60 Y61 R62 Y82 P84 R86 D97 G98 R100 K146 P147 G148 K149 Q152 L153 A154 R155 S156 A157 G158 Y170 L175 R176 S177 E179 R181 A197 H199 M200 L204 G205 K206 A207 G208 R211 W212 R213 R216 P217 T218 V219 R220 G221 T222 A223 M224 N225 V227 D228 H229 H231 G233 G234 E235 R237 G240 K241 H242 P243 P246 W247 T251 K252 G253 K255 T256 R257 K260 R261 T262 F265 R269 R270
BS02	rna	A	M200 R268	M200 R268

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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Biological Process

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Cellular Component

External links

PDB	RCSB:6vwm, PDBe:6vwm, PDBj:6vwm
PDBsum	6vwm
PubMed	32427100
UniProt	P60422\|RL2_ECOLI Large ribosomal subunit protein uL2 (Gene Name=rplB)

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