Copper in PDB 3in0: Crystal Structure of the F114P/M121Q Variant of Pseudomonas Aeruginosa Azurin in the Cu(II) State
Protein crystallography data
The structure of Crystal Structure of the F114P/M121Q Variant of Pseudomonas Aeruginosa Azurin in the Cu(II) State, PDB code: 3in0
was solved by
Y.G.Gao,
H.Robinson,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
10.00 /
2.35
|
Space group
|
P 1
|
Cell size a, b, c (Å), α, β, γ (°)
|
44.260,
49.590,
60.510,
100.39,
103.42,
104.31
|
R / Rfree (%)
|
24.8 /
28.6
|
Copper Binding Sites:
The binding sites of Copper atom in the Crystal Structure of the F114P/M121Q Variant of Pseudomonas Aeruginosa Azurin in the Cu(II) State
(pdb code 3in0). This binding sites where shown within
5.0 Angstroms radius around Copper atom.
In total 4 binding sites of Copper where determined in the
Crystal Structure of the F114P/M121Q Variant of Pseudomonas Aeruginosa Azurin in the Cu(II) State, PDB code: 3in0:
Jump to Copper binding site number:
1;
2;
3;
4;
Copper binding site 1 out
of 4 in 3in0
Go back to
Copper Binding Sites List in 3in0
Copper binding site 1 out
of 4 in the Crystal Structure of the F114P/M121Q Variant of Pseudomonas Aeruginosa Azurin in the Cu(II) State
Mono view
Stereo pair view
|
A full contact list of Copper with other atoms in the Cu binding
site number 1 of Crystal Structure of the F114P/M121Q Variant of Pseudomonas Aeruginosa Azurin in the Cu(II) State within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cu201
b:20.2
occ:1.00
|
ND1
|
A:HIS117
|
1.9
|
22.2
|
1.0
|
SG
|
A:CYS112
|
2.0
|
24.1
|
1.0
|
ND1
|
A:HIS46
|
2.0
|
22.6
|
1.0
|
NE2
|
A:GLN121
|
2.2
|
29.5
|
1.0
|
CG
|
A:HIS117
|
2.9
|
24.1
|
1.0
|
CE1
|
A:HIS46
|
2.9
|
28.8
|
1.0
|
CE1
|
A:HIS117
|
3.0
|
27.6
|
1.0
|
CG
|
A:HIS46
|
3.0
|
23.1
|
1.0
|
CB
|
A:CYS112
|
3.1
|
15.6
|
1.0
|
CD
|
A:GLN121
|
3.1
|
24.7
|
1.0
|
CB
|
A:HIS117
|
3.2
|
22.3
|
1.0
|
CB
|
A:HIS46
|
3.4
|
20.0
|
1.0
|
OE1
|
A:GLN121
|
3.5
|
23.1
|
1.0
|
O
|
A:GLY45
|
3.6
|
37.6
|
1.0
|
CA
|
A:HIS46
|
3.6
|
22.9
|
1.0
|
CD
|
A:PRO114
|
3.9
|
17.1
|
1.0
|
NE2
|
A:HIS46
|
4.0
|
29.4
|
1.0
|
CG
|
A:PRO114
|
4.0
|
19.1
|
1.0
|
CD2
|
A:HIS117
|
4.0
|
29.9
|
1.0
|
NE2
|
A:HIS117
|
4.1
|
27.3
|
1.0
|
CD2
|
A:HIS46
|
4.1
|
27.0
|
1.0
|
C
|
A:GLY45
|
4.3
|
33.5
|
1.0
|
N
|
A:HIS46
|
4.4
|
29.9
|
1.0
|
CG
|
A:GLN121
|
4.4
|
15.8
|
1.0
|
CA
|
A:CYS112
|
4.5
|
22.1
|
1.0
|
CA
|
A:HIS117
|
4.6
|
22.2
|
1.0
|
CB
|
A:GLN121
|
4.6
|
18.2
|
1.0
|
CB
|
A:PRO114
|
4.7
|
15.2
|
1.0
|
C
|
A:HIS46
|
4.8
|
23.3
|
1.0
|
N
|
A:ASN47
|
4.8
|
21.0
|
1.0
|
C
|
A:CYS112
|
4.9
|
24.9
|
1.0
|
|
Copper binding site 2 out
of 4 in 3in0
Go back to
Copper Binding Sites List in 3in0
Copper binding site 2 out
of 4 in the Crystal Structure of the F114P/M121Q Variant of Pseudomonas Aeruginosa Azurin in the Cu(II) State
Mono view
Stereo pair view
|
A full contact list of Copper with other atoms in the Cu binding
site number 2 of Crystal Structure of the F114P/M121Q Variant of Pseudomonas Aeruginosa Azurin in the Cu(II) State within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Cu201
b:25.2
occ:1.00
|
SG
|
B:CYS112
|
1.9
|
30.3
|
1.0
|
ND1
|
B:HIS46
|
2.0
|
43.4
|
1.0
|
ND1
|
B:HIS117
|
2.0
|
25.7
|
1.0
|
NE2
|
B:GLN121
|
2.2
|
24.4
|
1.0
|
CE1
|
B:HIS46
|
2.5
|
42.6
|
1.0
|
CE1
|
B:HIS117
|
2.9
|
29.7
|
1.0
|
CG
|
B:HIS117
|
3.0
|
26.8
|
1.0
|
CG
|
B:HIS46
|
3.2
|
37.6
|
1.0
|
CD
|
B:GLN121
|
3.2
|
21.6
|
1.0
|
CB
|
B:CYS112
|
3.2
|
21.7
|
1.0
|
CB
|
B:HIS117
|
3.4
|
24.5
|
1.0
|
O
|
B:GLY45
|
3.4
|
30.1
|
1.0
|
OE1
|
B:GLN121
|
3.6
|
31.7
|
1.0
|
NE2
|
B:HIS46
|
3.7
|
40.5
|
1.0
|
CA
|
B:HIS46
|
3.8
|
21.9
|
1.0
|
CB
|
B:HIS46
|
3.9
|
28.5
|
1.0
|
CD2
|
B:HIS46
|
4.0
|
38.9
|
1.0
|
NE2
|
B:HIS117
|
4.0
|
27.9
|
1.0
|
CD2
|
B:HIS117
|
4.1
|
27.3
|
1.0
|
CD
|
B:PRO114
|
4.1
|
27.6
|
1.0
|
CG
|
B:PRO114
|
4.3
|
22.5
|
1.0
|
C
|
B:GLY45
|
4.4
|
27.4
|
1.0
|
CG
|
B:GLN121
|
4.4
|
21.6
|
1.0
|
CA
|
B:CYS112
|
4.5
|
19.2
|
1.0
|
N
|
B:HIS46
|
4.6
|
23.3
|
1.0
|
CA
|
B:HIS117
|
4.6
|
23.2
|
1.0
|
CB
|
B:GLN121
|
4.7
|
24.6
|
1.0
|
CB
|
B:PRO114
|
4.7
|
21.0
|
1.0
|
N
|
B:ASN47
|
4.7
|
28.5
|
1.0
|
C
|
B:CYS112
|
4.8
|
20.9
|
1.0
|
CG
|
B:MET13
|
4.8
|
30.3
|
1.0
|
C
|
B:HIS46
|
4.9
|
28.0
|
1.0
|
|
Copper binding site 3 out
of 4 in 3in0
Go back to
Copper Binding Sites List in 3in0
Copper binding site 3 out
of 4 in the Crystal Structure of the F114P/M121Q Variant of Pseudomonas Aeruginosa Azurin in the Cu(II) State
Mono view
Stereo pair view
|
A full contact list of Copper with other atoms in the Cu binding
site number 3 of Crystal Structure of the F114P/M121Q Variant of Pseudomonas Aeruginosa Azurin in the Cu(II) State within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Cu201
b:28.3
occ:1.00
|
ND1
|
C:HIS117
|
1.9
|
23.1
|
1.0
|
ND1
|
C:HIS46
|
2.0
|
25.5
|
1.0
|
SG
|
C:CYS112
|
2.0
|
26.6
|
1.0
|
NE2
|
C:GLN121
|
2.2
|
29.0
|
1.0
|
CE1
|
C:HIS46
|
2.8
|
28.5
|
1.0
|
CE1
|
C:HIS117
|
2.9
|
27.1
|
1.0
|
CG
|
C:HIS46
|
3.0
|
24.3
|
1.0
|
CG
|
C:HIS117
|
3.0
|
24.4
|
1.0
|
CB
|
C:CYS112
|
3.2
|
16.9
|
1.0
|
CD
|
C:GLN121
|
3.3
|
26.3
|
1.0
|
CB
|
C:HIS117
|
3.4
|
21.6
|
1.0
|
CB
|
C:HIS46
|
3.4
|
20.5
|
1.0
|
O
|
C:GLY45
|
3.5
|
38.1
|
1.0
|
CA
|
C:HIS46
|
3.7
|
22.8
|
1.0
|
NE2
|
C:HIS46
|
3.9
|
29.0
|
1.0
|
NE2
|
C:HIS117
|
4.0
|
27.9
|
1.0
|
CG
|
C:GLN121
|
4.0
|
15.7
|
1.0
|
CD2
|
C:HIS46
|
4.0
|
27.9
|
1.0
|
CD2
|
C:HIS117
|
4.1
|
30.1
|
1.0
|
OE1
|
C:GLN121
|
4.1
|
26.2
|
1.0
|
CD
|
C:PRO114
|
4.1
|
18.4
|
1.0
|
CG
|
C:PRO114
|
4.3
|
19.5
|
1.0
|
C
|
C:GLY45
|
4.4
|
33.9
|
1.0
|
CB
|
C:GLN121
|
4.4
|
17.5
|
1.0
|
N
|
C:HIS46
|
4.5
|
30.0
|
1.0
|
CA
|
C:CYS112
|
4.5
|
22.6
|
1.0
|
N
|
C:ASN47
|
4.7
|
20.6
|
1.0
|
C
|
C:HIS46
|
4.8
|
24.3
|
1.0
|
CA
|
C:HIS117
|
4.9
|
21.0
|
1.0
|
|
Copper binding site 4 out
of 4 in 3in0
Go back to
Copper Binding Sites List in 3in0
Copper binding site 4 out
of 4 in the Crystal Structure of the F114P/M121Q Variant of Pseudomonas Aeruginosa Azurin in the Cu(II) State
Mono view
Stereo pair view
|
A full contact list of Copper with other atoms in the Cu binding
site number 4 of Crystal Structure of the F114P/M121Q Variant of Pseudomonas Aeruginosa Azurin in the Cu(II) State within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Cu201
b:26.9
occ:1.00
|
ND1
|
D:HIS117
|
1.9
|
27.2
|
1.0
|
ND1
|
D:HIS46
|
2.0
|
42.7
|
1.0
|
SG
|
D:CYS112
|
2.0
|
29.3
|
1.0
|
NE2
|
D:GLN121
|
2.1
|
24.1
|
1.0
|
CE1
|
D:HIS46
|
2.4
|
42.2
|
1.0
|
OE1
|
D:GLN121
|
2.6
|
33.4
|
1.0
|
CD
|
D:GLN121
|
2.7
|
22.1
|
1.0
|
CE1
|
D:HIS117
|
2.8
|
29.9
|
1.0
|
CG
|
D:HIS117
|
3.0
|
26.9
|
1.0
|
CG
|
D:HIS46
|
3.1
|
36.8
|
1.0
|
CB
|
D:CYS112
|
3.2
|
22.1
|
1.0
|
CB
|
D:HIS117
|
3.5
|
24.3
|
1.0
|
O
|
D:GLY45
|
3.5
|
28.8
|
1.0
|
NE2
|
D:HIS46
|
3.6
|
40.2
|
1.0
|
CA
|
D:HIS46
|
3.8
|
22.8
|
1.0
|
CB
|
D:HIS46
|
3.9
|
29.0
|
1.0
|
CG
|
D:PRO114
|
3.9
|
23.4
|
1.0
|
CD2
|
D:HIS46
|
4.0
|
39.1
|
1.0
|
NE2
|
D:HIS117
|
4.0
|
28.7
|
1.0
|
CD
|
D:PRO114
|
4.0
|
27.9
|
1.0
|
CD2
|
D:HIS117
|
4.1
|
27.9
|
1.0
|
CG
|
D:GLN121
|
4.1
|
21.1
|
1.0
|
C
|
D:GLY45
|
4.4
|
26.9
|
1.0
|
CA
|
D:CYS112
|
4.6
|
19.9
|
1.0
|
N
|
D:HIS46
|
4.6
|
24.1
|
1.0
|
CB
|
D:PRO114
|
4.6
|
19.6
|
1.0
|
CB
|
D:GLN121
|
4.7
|
23.6
|
1.0
|
N
|
D:ASN47
|
4.8
|
28.4
|
1.0
|
CA
|
D:HIS117
|
4.8
|
23.9
|
1.0
|
C
|
D:HIS46
|
4.9
|
28.1
|
1.0
|
C
|
D:CYS112
|
4.9
|
22.4
|
1.0
|
CG
|
D:MET13
|
5.0
|
29.9
|
1.0
|
|
Reference:
N.M.Marshall,
D.K.Garner,
T.D.Wilson,
Y.G.Gao,
H.Robinson,
M.J.Nilges,
Y.Lu.
Rationally Tuning the Reduction Potential of A Single Cupredoxin Beyond the Natural Range. Nature V. 462 113 2009.
ISSN: ISSN 0028-0836
PubMed: 19890331
DOI: 10.1038/NATURE08551
Page generated: Wed Jul 31 01:12:59 2024
|