Iron in PDB 7oua: Crystal Structure of Dimeric Chlorite Dismutase Variant R127K (Ccld R127K) From Cyanothece Sp. PCC7425
Protein crystallography data
The structure of Crystal Structure of Dimeric Chlorite Dismutase Variant R127K (Ccld R127K) From Cyanothece Sp. PCC7425, PDB code: 7oua
was solved by
D.Schmidt,
G.Mlynek,
K.Djinovic-Carugo,
C.Obinger,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
44.40 /
2.09
|
Space group
|
P 1
|
Cell size a, b, c (Å), α, β, γ (°)
|
48.712,
49.607,
54.579,
102.48,
104.84,
105
|
R / Rfree (%)
|
22.2 /
27
|
Iron Binding Sites:
The binding sites of Iron atom in the Crystal Structure of Dimeric Chlorite Dismutase Variant R127K (Ccld R127K) From Cyanothece Sp. PCC7425
(pdb code 7oua). This binding sites where shown within
5.0 Angstroms radius around Iron atom.
In total 2 binding sites of Iron where determined in the
Crystal Structure of Dimeric Chlorite Dismutase Variant R127K (Ccld R127K) From Cyanothece Sp. PCC7425, PDB code: 7oua:
Jump to Iron binding site number:
1;
2;
Iron binding site 1 out
of 2 in 7oua
Go back to
Iron Binding Sites List in 7oua
Iron binding site 1 out
of 2 in the Crystal Structure of Dimeric Chlorite Dismutase Variant R127K (Ccld R127K) From Cyanothece Sp. PCC7425
Mono view
Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 1 of Crystal Structure of Dimeric Chlorite Dismutase Variant R127K (Ccld R127K) From Cyanothece Sp. PCC7425 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe601
b:54.7
occ:1.00
|
FE
|
A:HEM601
|
0.0
|
54.7
|
1.0
|
NE2
|
A:HIS114
|
1.9
|
47.1
|
1.0
|
NB
|
A:HEM601
|
2.0
|
61.5
|
1.0
|
ND
|
A:HEM601
|
2.0
|
53.7
|
1.0
|
NC
|
A:HEM601
|
2.0
|
60.4
|
1.0
|
NA
|
A:HEM601
|
2.1
|
63.7
|
1.0
|
HZ2
|
A:LYS127
|
2.2
|
64.7
|
1.0
|
HZ1
|
A:LYS127
|
2.2
|
64.7
|
1.0
|
NZ
|
A:LYS127
|
2.6
|
53.9
|
1.0
|
CE1
|
A:HIS114
|
2.6
|
49.8
|
1.0
|
HE1
|
A:HIS114
|
2.7
|
59.8
|
1.0
|
C4B
|
A:HEM601
|
3.0
|
63.3
|
1.0
|
C1C
|
A:HEM601
|
3.1
|
58.8
|
1.0
|
CD2
|
A:HIS114
|
3.1
|
57.9
|
1.0
|
C1B
|
A:HEM601
|
3.1
|
60.9
|
1.0
|
C4D
|
A:HEM601
|
3.1
|
54.6
|
1.0
|
C1D
|
A:HEM601
|
3.1
|
55.4
|
1.0
|
HE3
|
A:LYS127
|
3.1
|
73.7
|
1.0
|
C1A
|
A:HEM601
|
3.1
|
56.1
|
1.0
|
C4C
|
A:HEM601
|
3.1
|
60.5
|
1.0
|
C4A
|
A:HEM601
|
3.1
|
61.5
|
1.0
|
HZ3
|
A:LYS127
|
3.3
|
64.7
|
1.0
|
CE
|
A:LYS127
|
3.4
|
61.4
|
1.0
|
CHC
|
A:HEM601
|
3.4
|
62.0
|
1.0
|
HD2
|
A:HIS114
|
3.4
|
69.6
|
1.0
|
CHA
|
A:HEM601
|
3.4
|
54.9
|
1.0
|
CHB
|
A:HEM601
|
3.4
|
62.6
|
1.0
|
CHD
|
A:HEM601
|
3.4
|
55.2
|
1.0
|
ND1
|
A:HIS114
|
3.8
|
51.0
|
1.0
|
CG
|
A:HIS114
|
4.1
|
53.5
|
1.0
|
HD2
|
A:LYS127
|
4.1
|
73.7
|
1.0
|
HE2
|
A:LYS127
|
4.1
|
73.7
|
1.0
|
HE3
|
A:MET162
|
4.2
|
79.6
|
1.0
|
C3B
|
A:HEM601
|
4.3
|
67.6
|
1.0
|
C2B
|
A:HEM601
|
4.3
|
63.4
|
1.0
|
C2C
|
A:HEM601
|
4.3
|
62.6
|
1.0
|
C3D
|
A:HEM601
|
4.3
|
56.5
|
1.0
|
C2D
|
A:HEM601
|
4.3
|
56.1
|
1.0
|
C2A
|
A:HEM601
|
4.3
|
57.5
|
1.0
|
C3A
|
A:HEM601
|
4.3
|
61.9
|
1.0
|
C3C
|
A:HEM601
|
4.3
|
62.4
|
1.0
|
CD
|
A:LYS127
|
4.3
|
61.4
|
1.0
|
HHC
|
A:HEM601
|
4.4
|
74.5
|
1.0
|
HHA
|
A:HEM601
|
4.4
|
65.9
|
1.0
|
HHD
|
A:HEM601
|
4.4
|
66.2
|
1.0
|
HHB
|
A:HEM601
|
4.4
|
75.1
|
1.0
|
HD1
|
A:HIS114
|
4.5
|
61.3
|
1.0
|
HG3
|
A:LYS127
|
4.6
|
72.0
|
1.0
|
HE1
|
A:PHE108
|
4.7
|
72.2
|
1.0
|
O1
|
A:MES603
|
4.7
|
75.7
|
1.0
|
HE1
|
A:MET162
|
4.8
|
79.6
|
1.0
|
HZ
|
A:PHE108
|
4.9
|
73.2
|
1.0
|
HG21
|
A:THR143
|
4.9
|
65.3
|
1.0
|
CE
|
A:MET162
|
4.9
|
66.3
|
1.0
|
HD13
|
A:LEU129
|
5.0
|
67.0
|
1.0
|
|
Iron binding site 2 out
of 2 in 7oua
Go back to
Iron Binding Sites List in 7oua
Iron binding site 2 out
of 2 in the Crystal Structure of Dimeric Chlorite Dismutase Variant R127K (Ccld R127K) From Cyanothece Sp. PCC7425
Mono view
Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 2 of Crystal Structure of Dimeric Chlorite Dismutase Variant R127K (Ccld R127K) From Cyanothece Sp. PCC7425 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Fe701
b:57.7
occ:1.00
|
FE
|
B:HEM701
|
0.0
|
57.7
|
1.0
|
NE2
|
B:HIS114
|
1.9
|
55.1
|
1.0
|
ND
|
B:HEM701
|
2.0
|
54.7
|
1.0
|
NC
|
B:HEM701
|
2.0
|
60.2
|
1.0
|
NA
|
B:HEM701
|
2.0
|
57.0
|
1.0
|
NB
|
B:HEM701
|
2.1
|
57.8
|
1.0
|
HZ3
|
B:LYS127
|
2.3
|
79.1
|
1.0
|
HE3
|
B:LYS127
|
2.4
|
70.7
|
1.0
|
HZ1
|
B:LYS127
|
2.5
|
79.1
|
1.0
|
CE1
|
B:HIS114
|
2.6
|
51.8
|
1.0
|
NZ
|
B:LYS127
|
2.6
|
65.9
|
1.0
|
HE1
|
B:HIS114
|
2.7
|
62.2
|
1.0
|
CE
|
B:LYS127
|
2.9
|
58.9
|
1.0
|
C4B
|
B:HEM701
|
3.0
|
58.6
|
1.0
|
C1C
|
B:HEM701
|
3.1
|
55.4
|
1.0
|
C1D
|
B:HEM701
|
3.1
|
53.6
|
1.0
|
C1A
|
B:HEM701
|
3.1
|
53.3
|
1.0
|
C4D
|
B:HEM701
|
3.1
|
49.7
|
1.0
|
C1B
|
B:HEM701
|
3.1
|
61.8
|
1.0
|
C4C
|
B:HEM701
|
3.1
|
60.7
|
1.0
|
C4A
|
B:HEM701
|
3.1
|
57.3
|
1.0
|
CD2
|
B:HIS114
|
3.1
|
53.8
|
1.0
|
HE2
|
B:LYS127
|
3.2
|
70.7
|
1.0
|
CHC
|
B:HEM701
|
3.4
|
57.2
|
1.0
|
CHA
|
B:HEM701
|
3.4
|
50.0
|
1.0
|
CHD
|
B:HEM701
|
3.4
|
53.5
|
1.0
|
CHB
|
B:HEM701
|
3.4
|
60.6
|
1.0
|
HD2
|
B:HIS114
|
3.5
|
64.7
|
1.0
|
HZ2
|
B:LYS127
|
3.5
|
79.1
|
1.0
|
ND1
|
B:HIS114
|
3.8
|
52.7
|
1.0
|
CG
|
B:HIS114
|
4.1
|
54.7
|
1.0
|
C3B
|
B:HEM701
|
4.2
|
57.8
|
1.0
|
C2B
|
B:HEM701
|
4.3
|
52.8
|
1.0
|
CD
|
B:LYS127
|
4.3
|
66.1
|
1.0
|
C2D
|
B:HEM701
|
4.3
|
46.0
|
1.0
|
C2A
|
B:HEM701
|
4.3
|
53.2
|
1.0
|
C2C
|
B:HEM701
|
4.3
|
55.5
|
1.0
|
C3D
|
B:HEM701
|
4.3
|
50.7
|
1.0
|
C3A
|
B:HEM701
|
4.3
|
56.8
|
1.0
|
C3C
|
B:HEM701
|
4.3
|
53.2
|
1.0
|
HD2
|
B:LYS127
|
4.4
|
79.3
|
1.0
|
HHC
|
B:HEM701
|
4.4
|
68.7
|
1.0
|
HHA
|
B:HEM701
|
4.4
|
60.0
|
1.0
|
HHD
|
B:HEM701
|
4.4
|
64.2
|
1.0
|
HHB
|
B:HEM701
|
4.4
|
72.8
|
1.0
|
HG3
|
B:LYS127
|
4.5
|
72.5
|
1.0
|
HD1
|
B:HIS114
|
4.6
|
63.3
|
1.0
|
HE1
|
B:PHE108
|
4.7
|
60.4
|
1.0
|
HZ
|
B:PHE108
|
4.8
|
56.0
|
1.0
|
HD3
|
B:LYS127
|
4.9
|
79.3
|
1.0
|
HG22
|
B:THR143
|
5.0
|
64.1
|
1.0
|
CG
|
B:LYS127
|
5.0
|
60.4
|
1.0
|
|
Reference:
D.Schmidt,
C.Obinger.
Impact of the Dynamics of the Catalytic Arginine on Nitrite and Chlorite Binding By Dimeric Chlorite Dismutase J.Inorg.Biochem. 2021.
ISSN: ISSN 0162-0134
DOI: 10.1016/J.JINORGBIO.2021.111689
Page generated: Thu Aug 8 14:45:24 2024
|