Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

6ZJA

Helicobacter pylori urease with inhibitor bound in the active site

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0005515	molecular_function	protein binding
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	0035550	cellular_component	urease complex
A	0043419	biological_process	urea catabolic process
B	0005515	molecular_function	protein binding
B	0005737	cellular_component	cytoplasm
B	0006807	biological_process	obsolete nitrogen compound metabolic process
B	0009039	molecular_function	urease activity
B	0016151	molecular_function	nickel cation binding
B	0016787	molecular_function	hydrolase activity
B	0016810	molecular_function	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds
B	0019627	biological_process	urea metabolic process
B	0043419	biological_process	urea catabolic process
B	0046872	molecular_function	metal ion binding
C	0005515	molecular_function	protein binding
C	0005737	cellular_component	cytoplasm
C	0009039	molecular_function	urease activity
C	0016151	molecular_function	nickel cation binding
C	0016787	molecular_function	hydrolase activity
C	0019627	biological_process	urea metabolic process
C	0035550	cellular_component	urease complex
C	0043419	biological_process	urea catabolic process
D	0005515	molecular_function	protein binding
D	0005737	cellular_component	cytoplasm
D	0006807	biological_process	obsolete nitrogen compound metabolic process
D	0009039	molecular_function	urease activity
D	0016151	molecular_function	nickel cation binding
D	0016787	molecular_function	hydrolase activity
D	0016810	molecular_function	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds
D	0019627	biological_process	urea metabolic process
D	0043419	biological_process	urea catabolic process
D	0046872	molecular_function	metal ion binding
E	0005515	molecular_function	protein binding
E	0005737	cellular_component	cytoplasm
E	0009039	molecular_function	urease activity
E	0016151	molecular_function	nickel cation binding
E	0016787	molecular_function	hydrolase activity
E	0019627	biological_process	urea metabolic process
E	0035550	cellular_component	urease complex
E	0043419	biological_process	urea catabolic process
F	0005515	molecular_function	protein binding
F	0005737	cellular_component	cytoplasm
F	0006807	biological_process	obsolete nitrogen compound metabolic process
F	0009039	molecular_function	urease activity
F	0016151	molecular_function	nickel cation binding
F	0016787	molecular_function	hydrolase activity
F	0016810	molecular_function	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds
F	0019627	biological_process	urea metabolic process
F	0043419	biological_process	urea catabolic process
F	0046872	molecular_function	metal ion binding
G	0005515	molecular_function	protein binding
G	0005737	cellular_component	cytoplasm
G	0009039	molecular_function	urease activity
G	0016151	molecular_function	nickel cation binding
G	0016787	molecular_function	hydrolase activity
G	0019627	biological_process	urea metabolic process
G	0035550	cellular_component	urease complex
G	0043419	biological_process	urea catabolic process
H	0005515	molecular_function	protein binding
H	0005737	cellular_component	cytoplasm
H	0006807	biological_process	obsolete nitrogen compound metabolic process
H	0009039	molecular_function	urease activity
H	0016151	molecular_function	nickel cation binding
H	0016787	molecular_function	hydrolase activity
H	0016810	molecular_function	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds
H	0019627	biological_process	urea metabolic process
H	0043419	biological_process	urea catabolic process
H	0046872	molecular_function	metal ion binding
I	0005515	molecular_function	protein binding
I	0005737	cellular_component	cytoplasm
I	0009039	molecular_function	urease activity
I	0016151	molecular_function	nickel cation binding
I	0016787	molecular_function	hydrolase activity
I	0019627	biological_process	urea metabolic process
I	0035550	cellular_component	urease complex
I	0043419	biological_process	urea catabolic process
J	0005515	molecular_function	protein binding
J	0005737	cellular_component	cytoplasm
J	0006807	biological_process	obsolete nitrogen compound metabolic process
J	0009039	molecular_function	urease activity
J	0016151	molecular_function	nickel cation binding
J	0016787	molecular_function	hydrolase activity
J	0016810	molecular_function	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds
J	0019627	biological_process	urea metabolic process
J	0043419	biological_process	urea catabolic process
J	0046872	molecular_function	metal ion binding
K	0005515	molecular_function	protein binding
K	0005737	cellular_component	cytoplasm
K	0009039	molecular_function	urease activity
K	0016151	molecular_function	nickel cation binding
K	0016787	molecular_function	hydrolase activity
K	0019627	biological_process	urea metabolic process
K	0035550	cellular_component	urease complex
K	0043419	biological_process	urea catabolic process
L	0005515	molecular_function	protein binding
L	0005737	cellular_component	cytoplasm
L	0006807	biological_process	obsolete nitrogen compound metabolic process
L	0009039	molecular_function	urease activity
L	0016151	molecular_function	nickel cation binding
L	0016787	molecular_function	hydrolase activity
L	0016810	molecular_function	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds
L	0019627	biological_process	urea metabolic process
L	0043419	biological_process	urea catabolic process
L	0046872	molecular_function	metal ion binding
M	0005515	molecular_function	protein binding
M	0005737	cellular_component	cytoplasm
M	0009039	molecular_function	urease activity
M	0016151	molecular_function	nickel cation binding
M	0016787	molecular_function	hydrolase activity
M	0019627	biological_process	urea metabolic process
M	0035550	cellular_component	urease complex
M	0043419	biological_process	urea catabolic process
N	0005515	molecular_function	protein binding
N	0005737	cellular_component	cytoplasm
N	0006807	biological_process	obsolete nitrogen compound metabolic process
N	0009039	molecular_function	urease activity
N	0016151	molecular_function	nickel cation binding
N	0016787	molecular_function	hydrolase activity
N	0016810	molecular_function	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds
N	0019627	biological_process	urea metabolic process
N	0043419	biological_process	urea catabolic process
N	0046872	molecular_function	metal ion binding
O	0005515	molecular_function	protein binding
O	0005737	cellular_component	cytoplasm
O	0009039	molecular_function	urease activity
O	0016151	molecular_function	nickel cation binding
O	0016787	molecular_function	hydrolase activity
O	0019627	biological_process	urea metabolic process
O	0035550	cellular_component	urease complex
O	0043419	biological_process	urea catabolic process
P	0005515	molecular_function	protein binding
P	0005737	cellular_component	cytoplasm
P	0006807	biological_process	obsolete nitrogen compound metabolic process
P	0009039	molecular_function	urease activity
P	0016151	molecular_function	nickel cation binding
P	0016787	molecular_function	hydrolase activity
P	0016810	molecular_function	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds
P	0019627	biological_process	urea metabolic process
P	0043419	biological_process	urea catabolic process
P	0046872	molecular_function	metal ion binding
Q	0005515	molecular_function	protein binding
Q	0005737	cellular_component	cytoplasm
Q	0009039	molecular_function	urease activity
Q	0016151	molecular_function	nickel cation binding
Q	0016787	molecular_function	hydrolase activity
Q	0019627	biological_process	urea metabolic process
Q	0035550	cellular_component	urease complex
Q	0043419	biological_process	urea catabolic process
R	0005515	molecular_function	protein binding
R	0005737	cellular_component	cytoplasm
R	0006807	biological_process	obsolete nitrogen compound metabolic process
R	0009039	molecular_function	urease activity
R	0016151	molecular_function	nickel cation binding
R	0016787	molecular_function	hydrolase activity
R	0016810	molecular_function	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds
R	0019627	biological_process	urea metabolic process
R	0043419	biological_process	urea catabolic process
R	0046872	molecular_function	metal ion binding
S	0005515	molecular_function	protein binding
S	0005737	cellular_component	cytoplasm
S	0009039	molecular_function	urease activity
S	0016151	molecular_function	nickel cation binding
S	0016787	molecular_function	hydrolase activity
S	0019627	biological_process	urea metabolic process
S	0035550	cellular_component	urease complex
S	0043419	biological_process	urea catabolic process
T	0005515	molecular_function	protein binding
T	0005737	cellular_component	cytoplasm
T	0006807	biological_process	obsolete nitrogen compound metabolic process
T	0009039	molecular_function	urease activity
T	0016151	molecular_function	nickel cation binding
T	0016787	molecular_function	hydrolase activity
T	0016810	molecular_function	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds
T	0019627	biological_process	urea metabolic process
T	0043419	biological_process	urea catabolic process
T	0046872	molecular_function	metal ion binding
U	0005515	molecular_function	protein binding
U	0005737	cellular_component	cytoplasm
U	0009039	molecular_function	urease activity
U	0016151	molecular_function	nickel cation binding
U	0016787	molecular_function	hydrolase activity
U	0019627	biological_process	urea metabolic process
U	0035550	cellular_component	urease complex
U	0043419	biological_process	urea catabolic process
V	0005515	molecular_function	protein binding
V	0005737	cellular_component	cytoplasm
V	0006807	biological_process	obsolete nitrogen compound metabolic process
V	0009039	molecular_function	urease activity
V	0016151	molecular_function	nickel cation binding
V	0016787	molecular_function	hydrolase activity
V	0016810	molecular_function	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds
V	0019627	biological_process	urea metabolic process
V	0043419	biological_process	urea catabolic process
V	0046872	molecular_function	metal ion binding
W	0005515	molecular_function	protein binding
W	0005737	cellular_component	cytoplasm
W	0009039	molecular_function	urease activity
W	0016151	molecular_function	nickel cation binding
W	0016787	molecular_function	hydrolase activity
W	0019627	biological_process	urea metabolic process
W	0035550	cellular_component	urease complex
W	0043419	biological_process	urea catabolic process
X	0005515	molecular_function	protein binding
X	0005737	cellular_component	cytoplasm
X	0006807	biological_process	obsolete nitrogen compound metabolic process
X	0009039	molecular_function	urease activity
X	0016151	molecular_function	nickel cation binding
X	0016787	molecular_function	hydrolase activity
X	0016810	molecular_function	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds
X	0019627	biological_process	urea metabolic process
X	0043419	biological_process	urea catabolic process
X	0046872	molecular_function	metal ion binding

Functional Information from PDB Data

site_id	AC1
Number of Residues	6
Details	binding site for residue NI B 601

Chain	Residue
B	KCX219
B	HIS221
B	HIS248
B	HIS274
B	NI602
B	DJM603

site_id	AC2
Number of Residues	6
Details	binding site for residue NI B 602

Chain	Residue
B	ASP362
B	NI601
B	DJM603
B	HIS136
B	HIS138
B	KCX219

site_id	AC3
Number of Residues	13
Details	binding site for residue DJM B 603

Chain	Residue
B	ALA169
B	KCX219
B	HIS221
B	HIS248
B	ALA278
B	GLY279
B	CYS321
B	HIS322
B	ASP362
B	ALA365
B	NI601
B	NI602
R	ILE467

site_id	AC4
Number of Residues	6
Details	binding site for residue NI J 601

Chain	Residue
J	KCX219
J	HIS221
J	HIS248
J	HIS274
J	NI602
J	DJM603

site_id	AC5
Number of Residues	6
Details	binding site for residue NI J 602

Chain	Residue
J	HIS136
J	HIS138
J	KCX219
J	ASP362
J	NI601
J	DJM603

site_id	AC6
Number of Residues	13
Details	binding site for residue DJM J 603

Chain	Residue
J	ALA169
J	KCX219
J	HIS221
J	HIS248
J	ALA278
J	GLY279
J	CYS321
J	HIS322
J	ASP362
J	ALA365
J	NI601
J	NI602
L	ILE467

site_id	AC7
Number of Residues	6
Details	binding site for residue NI D 601

Chain	Residue
D	KCX219
D	HIS221
D	HIS248
D	HIS274
D	NI602
D	DJM603

site_id	AC8
Number of Residues	6
Details	binding site for residue NI D 602

Chain	Residue
D	HIS136
D	HIS138
D	KCX219
D	ASP362
D	NI601
D	DJM603

site_id	AC9
Number of Residues	12
Details	binding site for residue DJM D 603

Chain	Residue
D	ALA169
D	KCX219
D	HIS221
D	HIS248
D	ALA278
D	GLY279
D	CYS321
D	HIS322
D	ASP362
D	ALA365
D	NI601
D	NI602

site_id	AD1
Number of Residues	6
Details	binding site for residue NI F 601

Chain	Residue
F	KCX219
F	HIS221
F	HIS248
F	HIS274
F	NI602
F	DJM603

site_id	AD2
Number of Residues	6
Details	binding site for residue NI F 602

Chain	Residue
F	HIS136
F	HIS138
F	KCX219
F	ASP362
F	NI601
F	DJM603

site_id	AD3
Number of Residues	12
Details	binding site for residue DJM F 603

Chain	Residue
F	ALA169
F	KCX219
F	HIS221
F	HIS248
F	ALA278
F	GLY279
F	CYS321
F	HIS322
F	ASP362
F	ALA365
F	NI601
F	NI602

site_id	AD4
Number of Residues	6
Details	binding site for residue NI H 601

Chain	Residue
H	HIS221
H	HIS248
H	HIS274
H	NI602
H	DJM603
H	KCX219

site_id	AD5
Number of Residues	6
Details	binding site for residue NI H 602

Chain	Residue
H	HIS136
H	HIS138
H	KCX219
H	ASP362
H	NI601
H	DJM603

site_id	AD6
Number of Residues	12
Details	binding site for residue DJM H 603

Chain	Residue
H	ALA169
H	KCX219
H	HIS221
H	HIS248
H	ALA278
H	GLY279
H	CYS321
H	HIS322
H	ASP362
H	ALA365
H	NI601
H	NI602

site_id	AD7
Number of Residues	6
Details	binding site for residue NI L 601

Chain	Residue
L	KCX219
L	HIS221
L	HIS248
L	HIS274
L	NI602
L	DJM603

site_id	AD8
Number of Residues	6
Details	binding site for residue NI L 602

Chain	Residue
L	HIS136
L	HIS138
L	KCX219
L	ASP362
L	NI601
L	DJM603

site_id	AD9
Number of Residues	12
Details	binding site for residue DJM L 603

Chain	Residue
L	ALA169
L	KCX219
L	HIS221
L	HIS248
L	ALA278
L	GLY279
L	CYS321
L	HIS322
L	ASP362
L	ALA365
L	NI601
L	NI602

site_id	AE1
Number of Residues	6
Details	binding site for residue NI N 601

Chain	Residue
N	KCX219
N	HIS221
N	HIS248
N	HIS274
N	NI602
N	DJM603

site_id	AE2
Number of Residues	6
Details	binding site for residue NI N 602

Chain	Residue
N	HIS136
N	HIS138
N	KCX219
N	ASP362
N	NI601
N	DJM603

site_id	AE3
Number of Residues	13
Details	binding site for residue DJM N 603

Chain	Residue
N	ALA169
N	KCX219
N	HIS221
N	HIS248
N	ALA278
N	GLY279
N	CYS321
N	HIS322
N	ASP362
N	ALA365
N	NI601
N	NI602
N	HOH719

site_id	AE4
Number of Residues	6
Details	binding site for residue NI P 601

Chain	Residue
P	KCX219
P	HIS221
P	HIS248
P	HIS274
P	NI602
P	DJM603

site_id	AE5
Number of Residues	6
Details	binding site for residue NI P 602

Chain	Residue
P	HIS136
P	HIS138
P	KCX219
P	ASP362
P	NI601
P	DJM603

site_id	AE6
Number of Residues	12
Details	binding site for residue DJM P 603

Chain	Residue
P	ALA169
P	KCX219
P	HIS221
P	HIS248
P	ALA278
P	GLY279
P	CYS321
P	HIS322
P	ASP362
P	ALA365
P	NI601
P	NI602

site_id	AE7
Number of Residues	6
Details	binding site for residue NI R 601

Chain	Residue
R	KCX219
R	HIS221
R	HIS248
R	HIS274
R	NI602
R	DJM603

site_id	AE8
Number of Residues	6
Details	binding site for residue NI R 602

Chain	Residue
R	HIS136
R	HIS138
R	KCX219
R	ASP362
R	NI601
R	DJM603

site_id	AE9
Number of Residues	13
Details	binding site for residue DJM R 603

Chain	Residue
N	ILE467
R	ALA169
R	KCX219
R	HIS221
R	HIS248
R	ALA278
R	GLY279
R	CYS321
R	HIS322
R	ASP362
R	ALA365
R	NI601
R	NI602

site_id	AF1
Number of Residues	6
Details	binding site for residue NI T 601

Chain	Residue
T	KCX219
T	HIS221
T	HIS248
T	HIS274
T	NI602
T	DJM603

site_id	AF2
Number of Residues	6
Details	binding site for residue NI T 602

Chain	Residue
T	HIS136
T	HIS138
T	KCX219
T	ASP362
T	NI601
T	DJM603

site_id	AF3
Number of Residues	12
Details	binding site for residue DJM T 603

Chain	Residue
T	ALA169
T	KCX219
T	HIS221
T	HIS248
T	ALA278
T	GLY279
T	CYS321
T	HIS322
T	ASP362
T	ALA365
T	NI601
T	NI602

site_id	AF4
Number of Residues	6
Details	binding site for residue NI V 601

Chain	Residue
V	KCX219
V	HIS221
V	HIS248
V	HIS274
V	NI602
V	DJM603

site_id	AF5
Number of Residues	6
Details	binding site for residue NI V 602

Chain	Residue
V	HIS136
V	HIS138
V	KCX219
V	ASP362
V	NI601
V	DJM603

site_id	AF6
Number of Residues	12
Details	binding site for residue DJM V 603

Chain	Residue
V	ALA169
V	KCX219
V	HIS221
V	HIS248
V	ALA278
V	GLY279
V	CYS321
V	HIS322
V	ASP362
V	ALA365
V	NI601
V	NI602

site_id	AF7
Number of Residues	6
Details	binding site for residue NI X 601

Chain	Residue
X	KCX219
X	HIS221
X	HIS248
X	HIS274
X	NI602
X	DJM603

site_id	AF8
Number of Residues	6
Details	binding site for residue NI X 602

Chain	Residue
X	HIS136
X	HIS138
X	KCX219
X	ASP362
X	NI601
X	DJM603

site_id	AF9
Number of Residues	12
Details	binding site for residue DJM X 603

Chain	Residue
X	ALA169
X	KCX219
X	HIS221
X	HIS248
X	ALA278
X	GLY279
X	CYS321
X	HIS322
X	ASP362
X	ALA365
X	NI601
X	NI602

Functional Information from PROSITE/UniProt

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

Chain	Residue	Details
B	MET319-ALA335

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

Chain	Residue	Details
B	THR129-PRO142

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	12
Details	ACT_SITE: Proton donor => ECO:0000305

Chain	Residue	Details
B	HIS322
J	HIS322
D	HIS322
F	HIS322
H	HIS322
L	HIS322
N	HIS322
P	HIS322
R	HIS322
T	HIS322
V	HIS322
X	HIS322

site_id	SWS_FT_FI2
Number of Residues	60
Details	BINDING:

Chain	Residue	Details
B	HIS136
B	HIS138
H	ASP362
L	HIS136
L	HIS138
L	HIS248
L	HIS274
L	ASP362
N	HIS136
N	HIS138
N	HIS248
N	HIS274
N	ASP362
P	HIS136
P	HIS138
P	HIS248
P	HIS274
P	ASP362
R	HIS136
R	HIS138
R	HIS248
R	HIS274
R	ASP362
T	HIS136
T	HIS138
T	HIS248
T	HIS274
T	ASP362
V	HIS136
V	HIS138
V	HIS248
V	HIS274
V	ASP362
X	HIS136
X	HIS138
X	HIS248
X	HIS274
X	ASP362
B	HIS248
B	HIS274
B	ASP362
J	HIS136
J	HIS138
J	HIS248
J	HIS274
J	ASP362
D	HIS136
D	HIS138
D	HIS248
D	HIS274
D	ASP362
F	HIS136
F	HIS138
F	HIS248
F	HIS274
F	ASP362
H	HIS136
H	HIS138
H	HIS248
H	HIS274

site_id	SWS_FT_FI3
Number of Residues	12
Details	BINDING: via carbamate group

Chain	Residue	Details
B	KCX219
J	KCX219
D	KCX219
F	KCX219
H	KCX219
L	KCX219
N	KCX219
P	KCX219
R	KCX219
T	KCX219
V	KCX219
X	KCX219

site_id	SWS_FT_FI4
Number of Residues	12
Details	BINDING: BINDING => ECO:0000305

Chain	Residue	Details
B	HIS221
J	HIS221
D	HIS221
F	HIS221
H	HIS221
L	HIS221
N	HIS221
P	HIS221
R	HIS221
T	HIS221
V	HIS221
X	HIS221

site_id	SWS_FT_FI5
Number of Residues	12
Details	MOD_RES: N6-carboxylysine => ECO:0000255\|HAMAP-Rule:MF_01953, ECO:0000269\|PubMed:11373617

Chain	Residue	Details
B	KCX219
J	KCX219
D	KCX219
F	KCX219
H	KCX219
L	KCX219
N	KCX219
P	KCX219
R	KCX219
T	KCX219
V	KCX219
X	KCX219

		Sequence (fasta)
		PDBx/mmCIF
		PDBML format (no-atom)
		PDB format (full)
		Validation report (PDF)