Copper in PDB 9fuk: Crystal Structure of Nitric Oxide-Treated Q262N Mutant of Three-Domain Heme-Cu Nitrite Reductase From Ralstonia Pickettii
Enzymatic activity of Crystal Structure of Nitric Oxide-Treated Q262N Mutant of Three-Domain Heme-Cu Nitrite Reductase From Ralstonia Pickettii
All present enzymatic activity of Crystal Structure of Nitric Oxide-Treated Q262N Mutant of Three-Domain Heme-Cu Nitrite Reductase From Ralstonia Pickettii:
1.7.2.1;
Protein crystallography data
The structure of Crystal Structure of Nitric Oxide-Treated Q262N Mutant of Three-Domain Heme-Cu Nitrite Reductase From Ralstonia Pickettii, PDB code: 9fuk
was solved by
N.Petchyam,
S.Antonyuk,
S.S.Hasnain,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
37.74 /
1.09
|
Space group
|
H 3
|
Cell size a, b, c (Å), α, β, γ (°)
|
128.069,
128.069,
86.352,
90,
90,
120
|
R / Rfree (%)
|
10.7 /
12.2
|
Other elements in 9fuk:
The structure of Crystal Structure of Nitric Oxide-Treated Q262N Mutant of Three-Domain Heme-Cu Nitrite Reductase From Ralstonia Pickettii also contains other interesting chemical elements:
Copper Binding Sites:
The binding sites of Copper atom in the Crystal Structure of Nitric Oxide-Treated Q262N Mutant of Three-Domain Heme-Cu Nitrite Reductase From Ralstonia Pickettii
(pdb code 9fuk). This binding sites where shown within
5.0 Angstroms radius around Copper atom.
In total 3 binding sites of Copper where determined in the
Crystal Structure of Nitric Oxide-Treated Q262N Mutant of Three-Domain Heme-Cu Nitrite Reductase From Ralstonia Pickettii, PDB code: 9fuk:
Jump to Copper binding site number:
1;
2;
3;
Copper binding site 1 out
of 3 in 9fuk
Go back to
Copper Binding Sites List in 9fuk
Copper binding site 1 out
of 3 in the Crystal Structure of Nitric Oxide-Treated Q262N Mutant of Three-Domain Heme-Cu Nitrite Reductase From Ralstonia Pickettii
 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 Nitric Oxide-Treated Q262N Mutant of Three-Domain Heme-Cu Nitrite Reductase From Ralstonia Pickettii within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cu501
b:9.8
occ:1.00
|
ND1
|
A:HIS94
|
2.0
|
9.9
|
1.0
|
ND1
|
A:HIS143
|
2.1
|
9.6
|
1.0
|
SG
|
A:CYS135
|
2.2
|
10.0
|
1.0
|
SD
|
A:MET148
|
2.6
|
9.7
|
1.0
|
HB3
|
A:HIS143
|
2.9
|
8.7
|
1.0
|
CE1
|
A:HIS143
|
2.9
|
9.2
|
1.0
|
CE1
|
A:HIS94
|
3.0
|
9.6
|
1.0
|
HE1
|
A:HIS143
|
3.1
|
9.2
|
1.0
|
CG
|
A:HIS143
|
3.1
|
9.0
|
1.0
|
HE1
|
A:HIS94
|
3.1
|
9.7
|
1.0
|
CG
|
A:HIS94
|
3.1
|
9.6
|
1.0
|
HA
|
A:HIS94
|
3.1
|
9.6
|
1.0
|
HB3
|
A:HIS94
|
3.1
|
9.7
|
1.0
|
HB2
|
A:CYS135
|
3.2
|
9.0
|
1.0
|
CB
|
A:CYS135
|
3.2
|
9.0
|
1.0
|
HE3
|
A:MET148
|
3.2
|
10.8
|
1.0
|
HB3
|
A:CYS135
|
3.4
|
9.0
|
1.0
|
CE
|
A:MET148
|
3.4
|
11.1
|
1.0
|
CB
|
A:HIS94
|
3.5
|
9.7
|
1.0
|
CB
|
A:HIS143
|
3.5
|
8.7
|
1.0
|
HB
|
A:THR137
|
3.5
|
9.8
|
1.0
|
HE1
|
A:MET148
|
3.6
|
10.8
|
1.0
|
CA
|
A:HIS94
|
3.8
|
9.5
|
1.0
|
H
|
A:ASN95
|
3.9
|
9.5
|
1.0
|
HE3
|
A:TRP61
|
3.9
|
9.7
|
1.0
|
O
|
A:PRO93
|
4.0
|
10.3
|
1.0
|
NE2
|
A:HIS143
|
4.1
|
9.2
|
1.0
|
CG
|
A:MET148
|
4.1
|
9.9
|
1.0
|
HB2
|
A:HIS143
|
4.1
|
8.7
|
1.0
|
NE2
|
A:HIS94
|
4.1
|
10.1
|
1.0
|
CD2
|
A:HIS143
|
4.2
|
9.2
|
1.0
|
CD2
|
A:HIS94
|
4.2
|
9.6
|
1.0
|
HE2
|
A:MET148
|
4.3
|
10.8
|
1.0
|
OG1
|
A:THR137
|
4.3
|
10.7
|
1.0
|
CB
|
A:THR137
|
4.3
|
9.7
|
1.0
|
HG3
|
A:MET148
|
4.4
|
9.7
|
1.0
|
HB2
|
A:HIS94
|
4.4
|
9.6
|
1.0
|
HB3
|
A:MET148
|
4.4
|
9.1
|
1.0
|
HA
|
A:HIS143
|
4.5
|
8.6
|
1.0
|
HB2
|
A:MET148
|
4.5
|
9.1
|
1.0
|
CE3
|
A:TRP61
|
4.6
|
9.8
|
1.0
|
H
|
A:THR137
|
4.6
|
9.5
|
1.0
|
CA
|
A:HIS143
|
4.6
|
8.5
|
1.0
|
CB
|
A:MET148
|
4.6
|
9.2
|
1.0
|
CA
|
A:CYS135
|
4.6
|
8.5
|
1.0
|
N
|
A:ASN95
|
4.6
|
9.5
|
1.0
|
HZ3
|
A:TRP61
|
4.8
|
10.0
|
1.0
|
N
|
A:HIS94
|
4.8
|
9.8
|
1.0
|
HB3
|
A:TRP61
|
4.8
|
9.5
|
1.0
|
HG2
|
A:MET148
|
4.8
|
9.7
|
1.0
|
C
|
A:HIS94
|
4.8
|
9.8
|
1.0
|
HG21
|
A:THR137
|
4.8
|
10.0
|
1.0
|
HG13
|
A:VAL45
|
4.8
|
11.1
|
1.0
|
HA
|
A:CYS135
|
4.8
|
8.7
|
1.0
|
C
|
A:PRO93
|
4.8
|
10.1
|
1.0
|
H
|
A:ALA136
|
5.0
|
8.9
|
1.0
|
|
Copper binding site 2 out
of 3 in 9fuk
Go back to
Copper Binding Sites List in 9fuk
Copper binding site 2 out
of 3 in the Crystal Structure of Nitric Oxide-Treated Q262N Mutant of Three-Domain Heme-Cu Nitrite Reductase From Ralstonia Pickettii
 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 Nitric Oxide-Treated Q262N Mutant of Three-Domain Heme-Cu Nitrite Reductase From Ralstonia Pickettii within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cu502
b:9.9
occ:0.70
|
CU
|
A:CU502
|
0.0
|
9.9
|
0.7
|
CU
|
A:CU502
|
0.5
|
10.1
|
0.3
|
NE2
|
A:HIS99
|
1.9
|
11.5
|
1.0
|
NE2
|
A:HIS134
|
2.1
|
10.1
|
1.0
|
O
|
A:HOH652
|
2.2
|
13.4
|
1.0
|
CE1
|
A:HIS99
|
2.8
|
11.7
|
1.0
|
CD2
|
A:HIS134
|
2.9
|
9.1
|
1.0
|
CD2
|
A:HIS99
|
3.0
|
10.5
|
1.0
|
HE1
|
A:HIS99
|
3.0
|
11.5
|
1.0
|
HD2
|
A:HIS134
|
3.0
|
9.0
|
1.0
|
CE1
|
A:HIS134
|
3.2
|
9.7
|
1.0
|
O
|
A:HOH1153
|
3.2
|
25.7
|
0.5
|
HD2
|
A:HIS99
|
3.2
|
10.7
|
1.0
|
HE1
|
A:HIS134
|
3.5
|
9.7
|
1.0
|
ND1
|
A:HIS99
|
4.0
|
11.7
|
1.0
|
OD1
|
A:ASP97
|
4.0
|
10.2
|
1.0
|
CG
|
A:HIS99
|
4.1
|
10.7
|
1.0
|
CG
|
A:HIS134
|
4.1
|
8.3
|
1.0
|
ND1
|
A:HIS134
|
4.2
|
9.6
|
1.0
|
CG
|
A:ASP97
|
4.6
|
9.7
|
1.0
|
HG12
|
A:VAL132
|
4.7
|
9.4
|
1.0
|
HA3
|
A:GLY269
|
4.7
|
8.9
|
1.0
|
OD2
|
A:ASP97
|
4.9
|
10.5
|
1.0
|
HB3
|
A:ASP97
|
4.9
|
9.0
|
1.0
|
|
Copper binding site 3 out
of 3 in 9fuk
Go back to
Copper Binding Sites List in 9fuk
Copper binding site 3 out
of 3 in the Crystal Structure of Nitric Oxide-Treated Q262N Mutant of Three-Domain Heme-Cu Nitrite Reductase From Ralstonia Pickettii
 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 Nitric Oxide-Treated Q262N Mutant of Three-Domain Heme-Cu Nitrite Reductase From Ralstonia Pickettii within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cu502
b:10.1
occ:0.30
|
CU
|
A:CU502
|
0.0
|
10.1
|
0.3
|
CU
|
A:CU502
|
0.5
|
9.9
|
0.7
|
O
|
A:HOH652
|
1.8
|
13.4
|
1.0
|
NE2
|
A:HIS134
|
1.9
|
10.1
|
1.0
|
NE2
|
A:HIS99
|
2.3
|
11.5
|
1.0
|
O
|
A:HOH1153
|
2.8
|
25.7
|
0.5
|
CE1
|
A:HIS134
|
2.9
|
9.7
|
1.0
|
CD2
|
A:HIS134
|
3.0
|
9.1
|
1.0
|
HE1
|
A:HIS134
|
3.0
|
9.7
|
1.0
|
HD2
|
A:HIS134
|
3.2
|
9.0
|
1.0
|
CD2
|
A:HIS99
|
3.2
|
10.5
|
1.0
|
CE1
|
A:HIS99
|
3.3
|
11.7
|
1.0
|
HD2
|
A:HIS99
|
3.3
|
10.7
|
1.0
|
HE1
|
A:HIS99
|
3.5
|
11.5
|
1.0
|
OD1
|
A:ASP97
|
3.6
|
10.2
|
1.0
|
ND1
|
A:HIS134
|
4.0
|
9.6
|
1.0
|
CG
|
A:HIS134
|
4.1
|
8.3
|
1.0
|
CG
|
A:ASP97
|
4.3
|
9.7
|
1.0
|
CG
|
A:HIS99
|
4.4
|
10.7
|
1.0
|
ND1
|
A:HIS99
|
4.4
|
11.7
|
1.0
|
HB3
|
A:ASP97
|
4.6
|
9.0
|
1.0
|
OD2
|
A:ASP97
|
4.7
|
10.5
|
1.0
|
|
Reference:
N.Petchyam,
S.Antonyuk,
S.S.Hasnain.
Structural Studies of Haem Three-Domain Copper Nitrite Reductase Mutants From Ralstonia Pickettii To Be Published.
Page generated: Mon Jul 14 09:55:57 2025
|