8HC1

CryoEM structure of Helicobacter pylori UreFD/urease complex

This is a non-PDB format compatible entry.

Functional Information from GO Data

Chain	GOid	namespace	contents
a	0005515	molecular_function	protein binding
a	0005737	cellular_component	cytoplasm
a	0016151	molecular_function	nickel cation binding
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	0008152	biological_process	metabolic process
b	0016151	molecular_function	nickel cation binding
B	0005515	molecular_function	protein binding
B	0005737	cellular_component	cytoplasm
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
C	0005515	molecular_function	protein binding
C	0005737	cellular_component	cytoplasm
C	0016151	molecular_function	nickel cation binding
d	0005515	molecular_function	protein binding
d	0005737	cellular_component	cytoplasm
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
D	0005515	molecular_function	protein binding
D	0005737	cellular_component	cytoplasm
D	0008152	biological_process	metabolic process
D	0016151	molecular_function	nickel cation binding
e	0005515	molecular_function	protein binding
e	0005737	cellular_component	cytoplasm
e	0016151	molecular_function	nickel cation 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	0008152	biological_process	metabolic process
f	0016151	molecular_function	nickel cation binding
F	0005515	molecular_function	protein binding
F	0005737	cellular_component	cytoplasm
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
G	0005515	molecular_function	protein binding
G	0005737	cellular_component	cytoplasm
G	0016151	molecular_function	nickel cation binding
h	0005515	molecular_function	protein binding
h	0005737	cellular_component	cytoplasm
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
H	0005515	molecular_function	protein binding
H	0005737	cellular_component	cytoplasm
H	0008152	biological_process	metabolic process
H	0016151	molecular_function	nickel cation binding
i	0005515	molecular_function	protein binding
i	0005737	cellular_component	cytoplasm
i	0016151	molecular_function	nickel cation 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	0008152	biological_process	metabolic process
j	0016151	molecular_function	nickel cation binding
J	0005515	molecular_function	protein binding
J	0005737	cellular_component	cytoplasm
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
K	0005515	molecular_function	protein binding
K	0005737	cellular_component	cytoplasm
K	0016151	molecular_function	nickel cation binding
l	0005515	molecular_function	protein binding
l	0005737	cellular_component	cytoplasm
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
L	0005515	molecular_function	protein binding
L	0005737	cellular_component	cytoplasm
L	0008152	biological_process	metabolic process
L	0016151	molecular_function	nickel cation binding
m	0005515	molecular_function	protein binding
m	0005737	cellular_component	cytoplasm
m	0016151	molecular_function	nickel cation 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	0008152	biological_process	metabolic process
n	0016151	molecular_function	nickel cation binding
N	0005515	molecular_function	protein binding
N	0005737	cellular_component	cytoplasm
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
O	0005515	molecular_function	protein binding
O	0005737	cellular_component	cytoplasm
O	0016151	molecular_function	nickel cation binding
p	0005515	molecular_function	protein binding
p	0005737	cellular_component	cytoplasm
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
P	0005515	molecular_function	protein binding
P	0005737	cellular_component	cytoplasm
P	0008152	biological_process	metabolic process
P	0016151	molecular_function	nickel cation binding
q	0005515	molecular_function	protein binding
q	0005737	cellular_component	cytoplasm
q	0016151	molecular_function	nickel cation 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	0008152	biological_process	metabolic process
r	0016151	molecular_function	nickel cation binding
R	0005515	molecular_function	protein binding
R	0005737	cellular_component	cytoplasm
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
S	0005515	molecular_function	protein binding
S	0005737	cellular_component	cytoplasm
S	0016151	molecular_function	nickel cation binding
t	0005515	molecular_function	protein binding
t	0005737	cellular_component	cytoplasm
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
T	0005515	molecular_function	protein binding
T	0005737	cellular_component	cytoplasm
T	0008152	biological_process	metabolic process
T	0016151	molecular_function	nickel cation binding
u	0005515	molecular_function	protein binding
u	0005737	cellular_component	cytoplasm
u	0016151	molecular_function	nickel cation 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	0008152	biological_process	metabolic process
v	0016151	molecular_function	nickel cation binding
V	0005515	molecular_function	protein binding
V	0005737	cellular_component	cytoplasm
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	0016151	molecular_function	nickel cation binding
X	0005515	molecular_function	protein binding
X	0005737	cellular_component	cytoplasm
X	0008152	biological_process	metabolic process
X	0016151	molecular_function	nickel cation binding
Y	0005515	molecular_function	protein binding
Y	0005737	cellular_component	cytoplasm
Y	0009039	molecular_function	urease activity
Y	0016151	molecular_function	nickel cation binding
Y	0016787	molecular_function	hydrolase activity
Y	0019627	biological_process	urea metabolic process
Y	0035550	cellular_component	urease complex
Y	0043419	biological_process	urea catabolic process
Z	0005515	molecular_function	protein binding
Z	0005737	cellular_component	cytoplasm
Z	0009039	molecular_function	urease activity
Z	0016151	molecular_function	nickel cation binding
Z	0016787	molecular_function	hydrolase activity
Z	0016810	molecular_function	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds
Z	0019627	biological_process	urea metabolic process
Z	0043419	biological_process	urea catabolic process
Z	0046872	molecular_function	metal ion binding

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
l	HIS322
p	HIS322
t	HIS322
F	HIS322
J	HIS322
N	HIS322
R	HIS322
V	HIS322
Z	HIS322
d	HIS322
h	HIS322

---

site_id	SWS_FT_FI2
Number of Residues	60
Details	BINDING:

Chain	Residue	Details
B	HIS136
F	ASP362
J	HIS136
J	HIS138
J	HIS248
J	HIS274
J	ASP362
N	HIS136
N	HIS138
N	HIS248
N	HIS274
B	HIS138
N	ASP362
R	HIS136
R	HIS138
R	HIS248
R	HIS274
R	ASP362
V	HIS136
V	HIS138
V	HIS248
V	HIS274
B	HIS248
V	ASP362
Z	HIS136
Z	HIS138
Z	HIS248
Z	HIS274
Z	ASP362
d	HIS136
d	HIS138
d	HIS248
d	HIS274
B	HIS274
d	ASP362
h	HIS136
h	HIS138
h	HIS248
h	HIS274
h	ASP362
l	HIS136
l	HIS138
l	HIS248
l	HIS274
B	ASP362
l	ASP362
p	HIS136
p	HIS138
p	HIS248
p	HIS274
p	ASP362
t	HIS136
t	HIS138
t	HIS248
t	HIS274
F	HIS136
t	ASP362
F	HIS138
F	HIS248
F	HIS274

---

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

Chain	Residue	Details
B	LYS219
l	LYS219
p	LYS219
t	LYS219
F	LYS219
J	LYS219
N	LYS219
R	LYS219
V	LYS219
Z	LYS219
d	LYS219
h	LYS219

---

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

Chain	Residue	Details
B	HIS221
l	HIS221
p	HIS221
t	HIS221
F	HIS221
J	HIS221
N	HIS221
R	HIS221
V	HIS221
Z	HIS221
d	HIS221
h	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	LYS219
l	LYS219
p	LYS219
t	LYS219
F	LYS219
J	LYS219
N	LYS219
R	LYS219
V	LYS219
Z	LYS219
d	LYS219
h	LYS219

---