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Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

5ZQE

Crystal Structure of Penicillin-Binding Protein D2 from Listeria monocytogenes in the Cefuroxime bound form

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0006508	biological_process	proteolysis
A	0009002	molecular_function	serine-type D-Ala-D-Ala carboxypeptidase activity
B	0006508	biological_process	proteolysis
B	0009002	molecular_function	serine-type D-Ala-D-Ala carboxypeptidase activity
C	0006508	biological_process	proteolysis
C	0009002	molecular_function	serine-type D-Ala-D-Ala carboxypeptidase activity
D	0006508	biological_process	proteolysis
D	0009002	molecular_function	serine-type D-Ala-D-Ala carboxypeptidase activity
E	0006508	biological_process	proteolysis
E	0009002	molecular_function	serine-type D-Ala-D-Ala carboxypeptidase activity
F	0006508	biological_process	proteolysis
F	0009002	molecular_function	serine-type D-Ala-D-Ala carboxypeptidase activity
G	0006508	biological_process	proteolysis
G	0009002	molecular_function	serine-type D-Ala-D-Ala carboxypeptidase activity
H	0006508	biological_process	proteolysis
H	0009002	molecular_function	serine-type D-Ala-D-Ala carboxypeptidase activity

Functional Information from PDB Data

site_id	AC1
Number of Residues	9
Details	binding site for residue CES A 301

Chain	Residue
A	ALA57
A	SER58
A	ASN120
A	THR208
A	THR223
A	GLY224
A	PHE225
A	THR226
A	ARG257

site_id	AC2
Number of Residues	6
Details	binding site for residue GOL A 302

Chain	Residue
A	VAL72
A	ASP73
A	TRP79
A	GLU187
A	HOH438
D	TYR28

site_id	AC3
Number of Residues	3
Details	binding site for residue GOL A 303

Chain	Residue
A	GLY42
A	LYS172
A	PHE175

site_id	AC4
Number of Residues	7
Details	binding site for residue GOL B 302

Chain	Residue
B	LEU69
B	VAL72
B	ASP73
B	TRP79
B	GLU187
C	TYR28
C	LYS256

site_id	AC5
Number of Residues	5
Details	binding site for residue GOL B 303

Chain	Residue
B	GLY42
B	LYS172
B	PHE175
B	LEU176
B	HOH427

site_id	AC6
Number of Residues	7
Details	binding site for residue GOL C 302

Chain	Residue
B	TYR28
B	LYS256
C	LEU69
C	ASP73
C	TRP79
C	GLU187
C	HOH448

site_id	AC7
Number of Residues	6
Details	binding site for residue GOL C 303

Chain	Residue
C	LEU83
C	ASP84
C	THR125
C	ASP128
C	ARG129
E	ASP200

site_id	AC8
Number of Residues	6
Details	binding site for residue GOL D 302

Chain	Residue
A	SER30
A	LYS256
D	ASP73
D	TRP79
D	GLU187
D	HOH426

site_id	AC9
Number of Residues	4
Details	binding site for residue GOL D 303

Chain	Residue
D	TYR37
D	GLY42
D	LYS172
D	LEU176

site_id	AD1
Number of Residues	8
Details	binding site for residue GOL E 302

Chain	Residue
E	LEU69
E	VAL72
E	ASP73
E	TRP79
E	GLU187
H	SER30
H	LYS256
H	HOH425

site_id	AD2
Number of Residues	8
Details	binding site for residue GOL F 302

Chain	Residue
F	VAL72
F	ASP73
F	TRP79
F	GLU187
F	HOH403
F	HOH451
G	SER30
G	LYS256

site_id	AD3
Number of Residues	3
Details	binding site for residue GOL F 303

Chain	Residue
F	GLY42
F	LYS172
F	PHE175

site_id	AD4
Number of Residues	3
Details	binding site for residue GOL F 304

Chain	Residue
F	PRO195
F	THR196
F	GLU206

site_id	AD5
Number of Residues	8
Details	binding site for residue GOL G 302

Chain	Residue
F	TYR28
F	SER30
F	LYS256
G	LEU69
G	VAL72
G	ASP73
G	TRP79
G	GLU187

site_id	AD6
Number of Residues	5
Details	binding site for residue GOL G 303

Chain	Residue
G	TYR37
G	GLY42
G	GLU47
G	LYS172
G	PHE175

site_id	AD7
Number of Residues	5
Details	binding site for residue GOL G 304

Chain	Residue
G	LYS82
G	TRP105
G	SER106
G	ASP109
G	LYS201

site_id	AD8
Number of Residues	3
Details	binding site for residue PEG G 305

Chain	Residue
F	LYS259
F	GLU262
G	ASN74

site_id	AD9
Number of Residues	7
Details	binding site for residue GOL H 302

Chain	Residue
H	VAL72
H	ASP73
H	TRP79
H	GLU187
E	TYR28
E	LYS256
H	LEU69

site_id	AE1
Number of Residues	18
Details	binding site for Di-peptide CES B 301 and SER B 58

Chain	Residue
B	ILE56
B	ALA57
B	LEU59
B	SER60
B	LYS61
B	VAL94
B	SER118
B	ASN120
B	SER158
B	LEU160
B	LYS222
B	THR223
B	GLY224
B	PHE225
B	THR226
B	ARG257
B	HOH455
B	HOH459

site_id	AE2
Number of Residues	15
Details	binding site for Di-peptide CES C 301 and SER C 58

Chain	Residue
C	ILE56
C	ALA57
C	LEU59
C	SER60
C	LYS61
C	VAL94
C	SER118
C	ASN120
C	SER158
C	LEU160
C	THR223
C	GLY224
C	PHE225
C	THR226
C	ARG257

site_id	AE3
Number of Residues	17
Details	binding site for Di-peptide CES D 301 and SER D 58

Chain	Residue
D	ILE56
D	ALA57
D	LEU59
D	SER60
D	LYS61
D	VAL94
D	SER118
D	ASN120
D	SER158
D	LEU160
D	THR208
D	THR223
D	GLY224
D	PHE225
D	THR226
D	ARG257
D	HOH419

site_id	AE4
Number of Residues	14
Details	binding site for Di-peptide CES E 301 and SER E 58

Chain	Residue
E	ILE56
E	ALA57
E	LEU59
E	SER60
E	LYS61
E	VAL94
E	SER118
E	ASN120
E	SER158
E	THR223
E	GLY224
E	PHE225
E	ARG257
E	HOH411

site_id	AE5
Number of Residues	15
Details	binding site for Di-peptide CES F 301 and SER F 58

Chain	Residue
F	ILE56
F	ALA57
F	LEU59
F	SER60
F	LYS61
F	SER118
F	ASN120
F	SER158
F	THR208
F	THR223
F	GLY224
F	PHE225
F	ARG257
F	HOH409
F	HOH412

site_id	AE6
Number of Residues	14
Details	binding site for Di-peptide CES G 301 and SER G 58

Chain	Residue
G	ILE56
G	ALA57
G	LEU59
G	SER60
G	LYS61
G	VAL94
G	SER118
G	ASN120
G	SER158
G	THR208
G	THR223
G	GLY224
G	PHE225
G	ARG257

site_id	AE7
Number of Residues	15
Details	binding site for Di-peptide CES H 301 and SER H 58

Chain	Residue
H	ILE56
H	ALA57
H	LEU59
H	SER60
H	LYS61
H	VAL94
H	SER118
H	ASN120
H	SER158
H	THR208
H	THR223
H	GLY224
H	PHE225
H	THR226
H	ARG257

247947

PDB entries from 2026-01-21

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