6QDY

The crystal structure of Sporosarcina pasteurii urease in complex with its substrate urea

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0005737	cellular_component	cytoplasm
A	0009039	molecular_function	urease activity
A	0016151	molecular_function	nickel cation binding
A	0016787	molecular_function	hydrolase activity
A	0019627	biological_process	urea metabolic process
A	0043419	biological_process	urea catabolic process
B	0005737	cellular_component	cytoplasm
B	0009039	molecular_function	urease activity
B	0016787	molecular_function	hydrolase activity
B	0035550	cellular_component	urease complex
B	0043419	biological_process	urea catabolic process
C	0005737	cellular_component	cytoplasm
C	0006807	biological_process	obsolete nitrogen compound metabolic process
C	0009039	molecular_function	urease activity
C	0016151	molecular_function	nickel cation binding
C	0016787	molecular_function	hydrolase activity
C	0016810	molecular_function	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds
C	0019627	biological_process	urea metabolic process
C	0043419	biological_process	urea catabolic process
C	0046872	molecular_function	metal ion binding

Functional Information from PDB Data

site_id	AC1
Number of Residues	10
Details	binding site for residue EDO A 201

Chain	Residue
A	GLY50
C	HOH1080
A	LYS51
A	THR52
A	PHE86
A	PRO87
A	ASP88
C	VAL309
C	ASN310
C	LYS559

---

site_id	AC2
Number of Residues	8
Details	binding site for residue EDO A 202

Chain	Residue
A	ASN4
A	ALA6
A	LYS10
A	HOH305
A	HOH314
C	PHE568
C	PHE570
C	HOH993

---

site_id	AC3
Number of Residues	6
Details	binding site for residue EDO A 203

Chain	Residue
A	CXM1
A	TYR32
A	ASP79
A	HOH324
C	HOH1003
C	HOH1026

---

site_id	AC4
Number of Residues	7
Details	binding site for residue EDO B 201

Chain	Residue
B	ASP101
B	HOH309
B	HOH319
C	PRO229
C	ASP233
C	ALA265
C	HOH1100

---

site_id	AC5
Number of Residues	7
Details	binding site for residue EDO B 202

Chain	Residue
A	PHE42
A	GLU59
A	HIS62
A	HOH376
A	HOH408
B	GLU84
B	HOH411

---

site_id	AC6
Number of Residues	2
Details	binding site for residue SO4 B 203

Chain	Residue
B	ARG116
B	HOH417

---

site_id	AC7
Number of Residues	8
Details	binding site for residue NI C 601

Chain	Residue
C	KCX220
C	HIS222
C	HIS249
C	HIS275
C	GLY280
C	NI602
C	F610
C	URE611

---

site_id	AC8
Number of Residues	7
Details	binding site for residue NI C 602

Chain	Residue
C	HIS137
C	HIS139
C	KCX220
C	ASP363
C	NI601
C	F610
C	URE611

---

site_id	AC9
Number of Residues	6
Details	binding site for residue EDO C 603

Chain	Residue
C	ASP34
C	THR36
C	TYR38
C	HOH756
C	HOH803
C	HOH846

---

site_id	AD1
Number of Residues	8
Details	binding site for residue EDO C 604

Chain	Residue
C	TYR35
C	TYR83
C	ILE97
C	GLU429
C	HOH704
C	HOH804
C	HOH1029
C	HOH1040

---

site_id	AD2
Number of Residues	7
Details	binding site for residue EDO C 605

Chain	Residue
C	ASP286
C	ALA289
C	ILE537
C	ILE539
C	HOH845
C	HOH975
C	HOH1049

---

site_id	AD3
Number of Residues	7
Details	binding site for residue EDO C 606

Chain	Residue
B	PRO70
B	THR73
C	GLN7
C	SER11
C	HOH732
C	HOH827
C	HOH925

---

site_id	AD4
Number of Residues	7
Details	binding site for residue EDO C 607

Chain	Residue
B	PRO39
B	ARG76
B	GLU78
B	HOH450
C	ASP337
C	SER338
C	TYR544

---

site_id	AD5
Number of Residues	6
Details	binding site for residue EDO C 608

Chain	Residue
C	VAL558
C	LYS559
C	GLU560
C	HOH1007
C	HOH1010
C	HOH1074

---

site_id	AD6
Number of Residues	9
Details	binding site for residue SO4 C 609

Chain	Residue
C	TYR12
C	ASN43
C	LYS48
C	LYS326
C	ILE329
C	HOH1021
B	SER71
B	GLY72
C	SER11

---

site_id	AD7
Number of Residues	7
Details	binding site for residue F C 610

Chain	Residue
C	HIS137
C	KCX220
C	HIS275
C	ASP363
C	NI601
C	NI602
C	URE611

---

site_id	AD8
Number of Residues	13
Details	binding site for residue URE C 611

Chain	Residue
C	HIS139
C	ALA170
C	KCX220
C	HIS222
C	HIS249
C	GLY280
C	HIS323
C	ASP363
C	ALA366
C	MET367
C	NI601
C	NI602
C	F610

---

Functional Information from PROSITE/UniProt

site_id	PS00145
Number of Residues	17
Details	UREASE_2 Urease active site. MVCHHLkqnIpeDVaFA

Chain	Residue	Details
C	MET320-ALA336

---

site_id	PS01120
Number of Residues	14
Details	UREASE_1 Urease nickel ligands signature. TAGGIDtHVHfinP

Chain	Residue	Details
C	THR130-PRO143

---

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	1
Details	ACT_SITE: Proton donor => ECO:0000305

Chain	Residue	Details
C	HIS323

---

site_id	SWS_FT_FI2
Number of Residues	3
Details	BINDING: BINDING => ECO:0000255|HAMAP-Rule:MF_01953, ECO:0000269|PubMed:10368287, ECO:0000269|PubMed:10766443, ECO:0000269|PubMed:11713685, ECO:0000269|PubMed:15038715, ECO:0000269|PubMed:30969470, ECO:0000269|DOI:10.1007/s007750050231

Chain	Residue	Details
C	ASP363
C	HIS137
C	HIS275

---

site_id	SWS_FT_FI3
Number of Residues	5
Details	BINDING: BINDING => ECO:0000269|PubMed:30969470

Chain	Residue	Details
C	ALA170
C	HIS222
C	HIS249
C	ALA366
C	HIS139

---

site_id	SWS_FT_FI4
Number of Residues	1
Details	BINDING: via carbamate group => ECO:0000255|HAMAP-Rule:MF_01953, ECO:0000269|PubMed:10368287, ECO:0000269|PubMed:10766443, ECO:0000269|PubMed:11713685, ECO:0000269|PubMed:15038715, ECO:0000269|PubMed:30969470, ECO:0000269|DOI:10.1007/s007750050231

Chain	Residue	Details
C	KCX220

---

site_id	SWS_FT_FI5
Number of Residues	1
Details	MOD_RES: N6-carboxylysine => ECO:0000255|HAMAP-Rule:MF_01953, ECO:0000269|PubMed:10368287, ECO:0000269|PubMed:10766443, ECO:0000269|PubMed:11713685, ECO:0000269|PubMed:15038715, ECO:0000269|PubMed:30969470, ECO:0000269|DOI:10.1007/s007750050231, ECO:0007744|PDB:1IE7, ECO:0007744|PDB:1S3T, ECO:0007744|PDB:1UBP, ECO:0007744|PDB:2UBP, ECO:0007744|PDB:4UBP

Chain	Residue	Details
C	KCX220

---