6ZRP

Crystal structure of class D Beta-lactamase OXA-48 in complex with meropenem

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0008658	molecular_function	penicillin binding
A	0008800	molecular_function	beta-lactamase activity
A	0017001	biological_process	antibiotic catabolic process
B	0008658	molecular_function	penicillin binding
B	0008800	molecular_function	beta-lactamase activity
B	0017001	biological_process	antibiotic catabolic process
C	0008658	molecular_function	penicillin binding
C	0008800	molecular_function	beta-lactamase activity
C	0017001	biological_process	antibiotic catabolic process
D	0008658	molecular_function	penicillin binding
D	0008800	molecular_function	beta-lactamase activity
D	0017001	biological_process	antibiotic catabolic process

Functional Information from PDB Data

site_id	AC1
Number of Residues	13
Details	binding site for residue DWZ A 301

Chain	Residue
A	ALA69
A	TYR211
A	ARG250
A	HOH407
A	HOH409
A	SER70
A	KCX73
A	ILE102
A	THR104
A	TYR117
A	VAL120
A	LEU158
A	GLY210

---

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

Chain	Residue
A	LEU81
A	SER184
A	ARG186
A	SER187
A	HOH492
A	HOH556

---

site_id	AC3
Number of Residues	4
Details	binding site for residue EDO A 303

Chain	Residue
A	ASP229
A	ASP230
A	HOH532
A	HOH542

---

site_id	AC4
Number of Residues	5
Details	binding site for residue EDO A 304

Chain	Residue
A	TYR177
A	GLU227
A	VAL232
A	HOH420
A	HOH437

---

site_id	AC5
Number of Residues	2
Details	binding site for residue CL A 305

Chain	Residue
A	ARG206
A	HOH592

---

site_id	AC6
Number of Residues	18
Details	binding site for residue DWZ B 301

Chain	Residue
B	ALA69
B	SER70
B	THR104
B	TYR117
B	SER118
B	VAL120
B	GLY210
B	TYR211
B	LEU247
B	ARG250
B	HOH424
B	HOH436
B	HOH489
B	HOH503
B	HOH510
B	HOH529
B	HOH542
B	HOH619

---

site_id	AC7
Number of Residues	7
Details	binding site for residue EDO B 302

Chain	Residue
B	VAL120
B	GLN124
B	ARG214
B	HOH414
C	ASP159
C	ARG214
C	EDO302

---

site_id	AC8
Number of Residues	3
Details	binding site for residue EDO B 303

Chain	Residue
B	SER136
B	ILE149
B	GLY151

---

site_id	AC9
Number of Residues	7
Details	binding site for residue EDO B 304

Chain	Residue
B	LYS39
B	SER40
B	ASP240
B	MET241
B	PRO242
B	HOH451
B	HOH464

---

site_id	AD1
Number of Residues	4
Details	binding site for residue EDO B 305

Chain	Residue
B	HIS109
B	ASN110
B	HOH446
B	HOH492

---

site_id	AD2
Number of Residues	5
Details	binding site for residue EDO B 306

Chain	Residue
B	LEU81
B	SER184
B	ARG186
B	SER187
B	HOH586

---

site_id	AD3
Number of Residues	11
Details	binding site for residue EDO C 302

Chain	Residue
B	GLN124
B	SER155
B	LEU158
B	ASP159
B	ARG214
B	EDO302
C	SER155
C	LEU158
C	ASP159
C	ARG214
C	EDO304

---

site_id	AD4
Number of Residues	7
Details	binding site for residue EDO C 303

Chain	Residue
C	ALA65
C	PHE66
C	PRO217
C	HOH408
C	HOH434
C	HOH452
C	HOH522

---

site_id	AD5
Number of Residues	7
Details	binding site for residue EDO C 304

Chain	Residue
B	ASP159
B	ARG214
C	GLN124
C	ARG214
C	EDO302
C	HOH423
C	HOH519

---

site_id	AD6
Number of Residues	6
Details	binding site for residue EDO C 305

Chain	Residue
C	SER40
C	MET239
C	ASP240
C	PRO242
C	HOH407
C	HOH426

---

site_id	AD7
Number of Residues	5
Details	binding site for residue EDO C 306

Chain	Residue
C	TYR177
C	GLU227
C	VAL232
C	HOH468
C	HOH475

---

site_id	AD8
Number of Residues	6
Details	binding site for residue EDO D 302

Chain	Residue
B	ASP148
B	HOH413
D	ARG61
D	PRO217
D	ASP240
D	HOH428

---

site_id	AD9
Number of Residues	6
Details	binding site for residue EDO D 303

Chain	Residue
D	LEU81
D	SER184
D	ARG186
D	SER187
D	HOH449
D	HOH553

---

site_id	AE1
Number of Residues	5
Details	binding site for residue EDO D 304

Chain	Residue
D	HIS90
D	ILE112
D	HOH423
D	HOH457
D	HOH506

---

site_id	AE2
Number of Residues	6
Details	binding site for residue EDO D 305

Chain	Residue
D	TYR177
D	GLU227
D	VAL232
D	HOH427
D	HOH436
D	HOH462

---

site_id	AE3
Number of Residues	6
Details	binding site for residue EDO D 306

Chain	Residue
D	SER40
D	ASP240
D	MET241
D	PRO242
D	HOH430
D	HOH434

---

site_id	AE4
Number of Residues	3
Details	binding site for residue EDO D 307

Chain	Residue
D	HIS109
D	ASN110
D	HOH566

---

site_id	AE5
Number of Residues	21
Details	binding site for Di-peptide GYJ C 301 and SER C 70

Chain	Residue
C	PRO68
C	ALA69
C	THR71
C	PHE72
C	LYS73
C	THR104
C	TYR117
C	SER118
C	VAL120
C	LYS208
C	THR209
C	GLY210
C	TYR211
C	LEU247
C	ARG250
C	HOH456
C	HOH459
C	HOH483
C	HOH547
C	HOH574
C	HOH599

---

site_id	AE6
Number of Residues	22
Details	binding site for Di-peptide GYJ D 301 and SER D 70

Chain	Residue
D	PRO68
D	ALA69
D	THR71
D	PHE72
D	KCX73
D	THR104
D	TRP105
D	TYR117
D	SER118
D	VAL120
D	LEU158
D	LYS208
D	THR209
D	GLY210
D	TYR211
D	ARG250
D	HOH426
D	HOH437
D	HOH587
D	HOH595
D	HOH612
D	HOH717

---

Functional Information from PROSITE/UniProt

site_id	PS00337
Number of Residues	11
Details	BETA_LACTAMASE_D Beta-lactamase class-D active site. PaSTFKIPnSL

Chain	Residue	Details
B	PRO68-LEU78
A	PRO68-LEU78

---

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	4
Details	Active site: {"description":"Acyl-ester intermediate","evidences":[{"source":"PIRSR","id":"PIRSR602137-50","evidenceCode":"ECO:0000255"},{"source":"PubMed","id":"25406838","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"26731698","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"31358584","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"32150407","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"4WMC","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5FAQ","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5FAS","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"6P97","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"6P98","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"6P99","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"6P9C","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"6V1O","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI2
Number of Residues	12
Details	Binding site: {"evidences":[{"source":"UniProtKB","id":"Q8RLA6","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI3
Number of Residues	4
Details	Binding site: {"evidences":[{"source":"UniProtKB","id":"P13661","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI4
Number of Residues	4
Details	Modified residue: {"description":"N6-carboxylysine","evidences":[{"source":"PIRSR","id":"PIRSR602137-50","evidenceCode":"ECO:0000255"},{"source":"PubMed","id":"19477418","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"25406838","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"3HBR","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4WMC","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---