Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

3ZVT

Unexpected tricovalent binding mode of boronic acids within the active site of a penicillin binding protein

Replaces: 2Y5R

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0000270	biological_process	peptidoglycan metabolic process
A	0004180	molecular_function	carboxypeptidase activity
A	0004185	molecular_function	serine-type carboxypeptidase activity
A	0005576	cellular_component	extracellular region
A	0006508	biological_process	proteolysis
A	0008233	molecular_function	peptidase activity
A	0008360	biological_process	regulation of cell shape
A	0009002	molecular_function	serine-type D-Ala-D-Ala carboxypeptidase activity
A	0009252	biological_process	peptidoglycan biosynthetic process
A	0016787	molecular_function	hydrolase activity
A	0046677	biological_process	response to antibiotic
A	0071555	biological_process	cell wall organization
B	0000270	biological_process	peptidoglycan metabolic process
B	0004180	molecular_function	carboxypeptidase activity
B	0004185	molecular_function	serine-type carboxypeptidase activity
B	0005576	cellular_component	extracellular region
B	0006508	biological_process	proteolysis
B	0008233	molecular_function	peptidase activity
B	0008360	biological_process	regulation of cell shape
B	0009002	molecular_function	serine-type D-Ala-D-Ala carboxypeptidase activity
B	0009252	biological_process	peptidoglycan biosynthetic process
B	0016787	molecular_function	hydrolase activity
B	0046677	biological_process	response to antibiotic
B	0071555	biological_process	cell wall organization
C	0000270	biological_process	peptidoglycan metabolic process
C	0004180	molecular_function	carboxypeptidase activity
C	0004185	molecular_function	serine-type carboxypeptidase activity
C	0005576	cellular_component	extracellular region
C	0006508	biological_process	proteolysis
C	0008233	molecular_function	peptidase activity
C	0008360	biological_process	regulation of cell shape
C	0009002	molecular_function	serine-type D-Ala-D-Ala carboxypeptidase activity
C	0009252	biological_process	peptidoglycan biosynthetic process
C	0016787	molecular_function	hydrolase activity
C	0046677	biological_process	response to antibiotic
C	0071555	biological_process	cell wall organization
D	0000270	biological_process	peptidoglycan metabolic process
D	0004180	molecular_function	carboxypeptidase activity
D	0004185	molecular_function	serine-type carboxypeptidase activity
D	0005576	cellular_component	extracellular region
D	0006508	biological_process	proteolysis
D	0008233	molecular_function	peptidase activity
D	0008360	biological_process	regulation of cell shape
D	0009002	molecular_function	serine-type D-Ala-D-Ala carboxypeptidase activity
D	0009252	biological_process	peptidoglycan biosynthetic process
D	0016787	molecular_function	hydrolase activity
D	0046677	biological_process	response to antibiotic
D	0071555	biological_process	cell wall organization

Functional Information from PDB Data

site_id	AC1
Number of Residues	11
Details	BINDING SITE FOR RESIDUE B07 A 500

Chain	Residue
A	ALA48
A	THR413
B	ALA175
A	SER49
A	LYS52
A	TYR147
A	SER298
A	GLY348
A	LYS410
A	THR411
A	GLY412

site_id	AC2
Number of Residues	3
Details	BINDING SITE FOR RESIDUE SO4 A 601

Chain	Residue
A	ASP281
A	HIS282
A	THR283

site_id	AC3
Number of Residues	2
Details	BINDING SITE FOR RESIDUE SO4 A 602

Chain	Residue
A	TYR145
A	ARG236

site_id	AC4
Number of Residues	4
Details	BINDING SITE FOR RESIDUE SO4 A 603

Chain	Residue
A	SER131
A	GLU132
A	ARG133
A	LEU134

site_id	AC5
Number of Residues	3
Details	BINDING SITE FOR RESIDUE SO4 A 604

Chain	Residue
A	GLY159
A	GLU160
A	ARG161

site_id	AC6
Number of Residues	4
Details	BINDING SITE FOR RESIDUE MG A 610

Chain	Residue
A	ALA186
A	GLU188
A	HIS247
A	GLU251

site_id	AC7
Number of Residues	2
Details	BINDING SITE FOR RESIDUE MG A 611

Chain	Residue
A	VAL406
A	HIS462

site_id	AC8
Number of Residues	7
Details	BINDING SITE FOR RESIDUE B07 B 500

Chain	Residue
B	SER49
B	SER298
B	LEU349
B	LYS410
B	THR411
B	GLY412
B	THR413

site_id	AC9
Number of Residues	3
Details	BINDING SITE FOR RESIDUE SO4 B 601

Chain	Residue
B	ASP281
B	HIS282
B	THR283

site_id	BC1
Number of Residues	2
Details	BINDING SITE FOR RESIDUE SO4 B 602

Chain	Residue
B	ALA234
B	ARG236

site_id	BC2
Number of Residues	3
Details	BINDING SITE FOR RESIDUE SO4 B 603

Chain	Residue
B	GLU132
B	ARG133
B	LEU134

site_id	BC3
Number of Residues	3
Details	BINDING SITE FOR RESIDUE SO4 B 604

Chain	Residue
B	GLY159
B	GLU160
B	ARG161

site_id	BC4
Number of Residues	8
Details	BINDING SITE FOR RESIDUE B07 C 500

Chain	Residue
C	SER49
C	SER298
C	LEU349
C	LYS410
C	THR411
C	GLY412
C	THR413
C	MET414

site_id	BC5
Number of Residues	1
Details	BINDING SITE FOR RESIDUE SO4 C 601

Chain	Residue
C	HIS282

site_id	BC6
Number of Residues	2
Details	BINDING SITE FOR RESIDUE SO4 C 602

Chain	Residue
C	ALA234
C	ARG236

site_id	BC7
Number of Residues	4
Details	BINDING SITE FOR RESIDUE SO4 C 603

Chain	Residue
C	SER131
C	GLU132
C	ARG133
C	LEU134

site_id	BC8
Number of Residues	4
Details	BINDING SITE FOR RESIDUE SO4 C 604

Chain	Residue
C	HIS158
C	GLY159
C	GLU160
C	ARG161

site_id	BC9
Number of Residues	9
Details	BINDING SITE FOR RESIDUE B07 D 500

Chain	Residue
D	SER49
D	LYS52
D	TYR147
D	SER298
D	LYS410
D	THR411
D	GLY412
D	THR413
D	MET414

site_id	CC1
Number of Residues	4
Details	BINDING SITE FOR RESIDUE SO4 D 601

Chain	Residue
D	GLU109
D	ASP281
D	HIS282
D	THR283

site_id	CC2
Number of Residues	1
Details	BINDING SITE FOR RESIDUE SO4 D 602

Chain	Residue
D	ARG236

site_id	CC3
Number of Residues	4
Details	BINDING SITE FOR RESIDUE SO4 D 603

Chain	Residue
D	SER131
D	GLU132
D	ARG133
D	LEU134

site_id	CC4
Number of Residues	4
Details	BINDING SITE FOR RESIDUE SO4 D 604

Chain	Residue
D	HIS158
D	GLY159
D	GLU160
D	ARG161

site_id	CC5
Number of Residues	3
Details	BINDING SITE FOR RESIDUE MG D 610

Chain	Residue
D	GLU188
D	HIS247
D	GLU251

site_id	CC6
Number of Residues	2
Details	BINDING SITE FOR RESIDUE MG D 611

Chain	Residue
D	VAL406
D	HIS462

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	692
Details	Region: {"description":"Absent in class-A beta-lactamases"}

Chain

Residue

Details

site_id	SWS_FT_FI2
Number of Residues	4
Details	Active site: {"description":"Acyl-ester intermediate"}

Chain

Residue

Details

site_id	SWS_FT_FI3
Number of Residues	4
Details	Active site: {"description":"Proton acceptor"}

Chain

Residue

Details

site_id	SWS_FT_FI4
Number of Residues	4
Details	Active site: {"evidences":[{"evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

site_id	SWS_FT_FI5
Number of Residues	4
Details	Binding site: {}

Chain

Residue

Details

		Sequence (fasta)
		PDBx/mmCIF
		PDBML format (no-atom)
		PDB format (full)
		Validation report (PDF)
		EDMap 2fo-fc (MTZ)