Copper in PDB 1gmw: Structure of Uree
Protein crystallography data
The structure of Structure of Uree, PDB code: 1gmw
was solved by
H.K.Song,
S.B.Mulrooney,
R.Huber,
R.Hausinger,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
17 /
1.5
|
Space group
|
P 1 21 1
|
Cell size a, b, c (Å), α, β, γ (°)
|
43.756,
129.905,
56.419,
90.00,
91.21,
90.00
|
R / Rfree (%)
|
22.3 /
26.1
|
Copper Binding Sites:
The binding sites of Copper atom in the Structure of Uree
(pdb code 1gmw). This binding sites where shown within
5.0 Angstroms radius around Copper atom.
In total 6 binding sites of Copper where determined in the
Structure of Uree, PDB code: 1gmw:
Jump to Copper binding site number:
1;
2;
3;
4;
5;
6;
Copper binding site 1 out
of 6 in 1gmw
Go back to
Copper Binding Sites List in 1gmw
Copper binding site 1 out
of 6 in the Structure of Uree
 Mono view
 Stereo pair view
|
A full contact list of Copper with other atoms in the Cu binding
site number 1 of Structure of Uree within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cu1139
b:62.6
occ:1.00
|
NE2
|
A:HIS110
|
2.3
|
54.9
|
1.0
|
O
|
A:HOH2034
|
2.3
|
43.8
|
1.0
|
CD2
|
A:HIS110
|
3.1
|
53.0
|
1.0
|
CD2
|
A:HIS112
|
3.2
|
65.5
|
1.0
|
NE2
|
A:HIS112
|
3.2
|
65.9
|
1.0
|
CE1
|
A:HIS110
|
3.4
|
54.4
|
1.0
|
CG
|
A:HIS110
|
4.3
|
54.9
|
1.0
|
CE1
|
A:HIS112
|
4.4
|
66.2
|
1.0
|
CG
|
A:HIS112
|
4.4
|
65.7
|
1.0
|
ND1
|
A:HIS110
|
4.4
|
54.6
|
1.0
|
ND1
|
A:HIS112
|
5.0
|
66.1
|
1.0
|
|
Copper binding site 2 out
of 6 in 1gmw
Go back to
Copper Binding Sites List in 1gmw
Copper binding site 2 out
of 6 in the Structure of Uree
 Mono view
 Stereo pair view
|
A full contact list of Copper with other atoms in the Cu binding
site number 2 of Structure of Uree within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Cu1139
b:48.8
occ:1.00
|
NE2
|
D:HIS96
|
2.1
|
32.2
|
1.0
|
NE2
|
B:HIS96
|
2.1
|
40.9
|
1.0
|
CE1
|
D:HIS96
|
3.0
|
33.8
|
1.0
|
CE1
|
B:HIS96
|
3.1
|
36.7
|
1.0
|
CD2
|
D:HIS96
|
3.1
|
31.6
|
1.0
|
CD2
|
B:HIS96
|
3.1
|
37.6
|
1.0
|
ND1
|
D:HIS96
|
4.2
|
31.7
|
1.0
|
ND1
|
B:HIS96
|
4.2
|
38.5
|
1.0
|
CG
|
D:HIS96
|
4.2
|
33.8
|
1.0
|
CG
|
B:HIS96
|
4.2
|
38.8
|
1.0
|
O
|
D:ASN94
|
4.7
|
38.0
|
1.0
|
|
Copper binding site 3 out
of 6 in 1gmw
Go back to
Copper Binding Sites List in 1gmw
Copper binding site 3 out
of 6 in the Structure of Uree
 Mono view
 Stereo pair view
|
A full contact list of Copper with other atoms in the Cu binding
site number 3 of Structure of Uree within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Cu1140
b:54.5
occ:1.00
|
NE2
|
B:HIS110
|
2.3
|
42.0
|
1.0
|
NE2
|
B:HIS112
|
2.3
|
54.3
|
1.0
|
CD2
|
B:HIS110
|
3.0
|
39.7
|
1.0
|
CD2
|
B:HIS112
|
3.2
|
53.2
|
1.0
|
CE1
|
B:HIS112
|
3.2
|
53.8
|
1.0
|
CE1
|
B:HIS110
|
3.3
|
41.6
|
1.0
|
ND1
|
B:HIS112
|
4.2
|
53.8
|
1.0
|
CG
|
B:HIS112
|
4.3
|
53.1
|
1.0
|
CG
|
B:HIS110
|
4.3
|
41.1
|
1.0
|
ND1
|
B:HIS110
|
4.4
|
41.6
|
1.0
|
|
Copper binding site 4 out
of 6 in 1gmw
Go back to
Copper Binding Sites List in 1gmw
Copper binding site 4 out
of 6 in the Structure of Uree
 Mono view
 Stereo pair view
|
A full contact list of Copper with other atoms in the Cu binding
site number 4 of Structure of Uree within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Cu1139
b:47.3
occ:1.00
|
NE2
|
C:HIS96
|
2.0
|
29.0
|
1.0
|
NE2
|
A:HIS96
|
2.0
|
35.2
|
1.0
|
CE1
|
C:HIS96
|
2.7
|
25.9
|
1.0
|
CE1
|
A:HIS96
|
3.0
|
33.0
|
1.0
|
CD2
|
A:HIS96
|
3.0
|
31.9
|
1.0
|
CD2
|
C:HIS96
|
3.2
|
23.8
|
1.0
|
O
|
C:HOH2023
|
3.8
|
41.3
|
1.0
|
ND1
|
C:HIS96
|
3.9
|
27.2
|
1.0
|
ND1
|
A:HIS96
|
4.1
|
32.0
|
1.0
|
CG
|
A:HIS96
|
4.1
|
32.1
|
1.0
|
CG
|
C:HIS96
|
4.2
|
27.7
|
1.0
|
O
|
C:ASN94
|
4.7
|
36.2
|
1.0
|
|
Copper binding site 5 out
of 6 in 1gmw
Go back to
Copper Binding Sites List in 1gmw
Copper binding site 5 out
of 6 in the Structure of Uree
 Mono view
 Stereo pair view
|
A full contact list of Copper with other atoms in the Cu binding
site number 5 of Structure of Uree within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Cu1140
b:38.1
occ:1.00
|
NE2
|
C:HIS112
|
2.1
|
30.8
|
1.0
|
NE2
|
C:HIS110
|
2.1
|
27.4
|
1.0
|
CD2
|
C:HIS112
|
3.0
|
29.8
|
1.0
|
CE1
|
C:HIS112
|
3.0
|
29.4
|
1.0
|
CE1
|
C:HIS110
|
3.1
|
26.1
|
1.0
|
CD2
|
C:HIS110
|
3.1
|
27.5
|
1.0
|
ND1
|
C:HIS112
|
4.2
|
29.8
|
1.0
|
CG
|
C:HIS112
|
4.2
|
31.8
|
1.0
|
ND1
|
C:HIS110
|
4.2
|
27.7
|
1.0
|
CG
|
C:HIS110
|
4.2
|
27.2
|
1.0
|
O
|
C:HOH2033
|
4.7
|
23.9
|
1.0
|
CD2
|
C:PHE127
|
4.8
|
36.2
|
1.0
|
|
Copper binding site 6 out
of 6 in 1gmw
Go back to
Copper Binding Sites List in 1gmw
Copper binding site 6 out
of 6 in the Structure of Uree
 Mono view
 Stereo pair view
|
A full contact list of Copper with other atoms in the Cu binding
site number 6 of Structure of Uree within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Cu1139
b:62.0
occ:1.00
|
NE2
|
D:HIS112
|
1.9
|
61.4
|
1.0
|
O
|
D:HOH2026
|
2.2
|
47.5
|
1.0
|
NE2
|
D:HIS110
|
2.2
|
52.5
|
1.0
|
O
|
D:HOH2027
|
2.3
|
50.0
|
1.0
|
CD2
|
D:HIS112
|
2.5
|
60.4
|
1.0
|
CE1
|
D:HIS112
|
3.0
|
61.5
|
1.0
|
CD2
|
D:HIS110
|
3.2
|
53.0
|
1.0
|
CE1
|
D:HIS110
|
3.2
|
51.7
|
1.0
|
CG
|
D:HIS112
|
3.6
|
60.7
|
1.0
|
ND1
|
D:HIS112
|
3.9
|
61.7
|
1.0
|
ND1
|
D:HIS110
|
4.3
|
52.3
|
1.0
|
CG
|
D:HIS110
|
4.3
|
51.9
|
1.0
|
CB
|
D:HIS112
|
4.9
|
58.1
|
1.0
|
CD2
|
D:PHE127
|
5.0
|
50.7
|
1.0
|
|
Reference:
H.K.Song,
S.B.Mulrooney,
R.Huber,
R.Hausinger.
Crystal Structure of Klebsiella Aerogenes Uree, A Nickel-Binding Metallochaperone For Urease Activation J.Biol.Chem. V. 276 49359 2001.
ISSN: ISSN 0021-9258
PubMed: 11591723
DOI: 10.1074/JBC.M108619200
Page generated: Tue Jul 30 21:49:37 2024
|