Iron in PDB 2yiu: X-Ray Structure of the Dimeric Cytochrome BC1 Complex From the Soil Bacterium Paracoccus Denitrificans at 2.7 Angstrom Resolution
Enzymatic activity of X-Ray Structure of the Dimeric Cytochrome BC1 Complex From the Soil Bacterium Paracoccus Denitrificans at 2.7 Angstrom Resolution
All present enzymatic activity of X-Ray Structure of the Dimeric Cytochrome BC1 Complex From the Soil Bacterium Paracoccus Denitrificans at 2.7 Angstrom Resolution:
1.10.2.2;
Protein crystallography data
The structure of X-Ray Structure of the Dimeric Cytochrome BC1 Complex From the Soil Bacterium Paracoccus Denitrificans at 2.7 Angstrom Resolution, PDB code: 2yiu
was solved by
T.Kleinschroth,
M.Castellani,
C.H.Trinh,
N.Morgner,
B.Brutschy,
B.Ludwig,
C.Hunte,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
97.96 /
2.70
|
Space group
|
P 1 21 1
|
Cell size a, b, c (Å), α, β, γ (°)
|
85.300,
164.910,
100.610,
90.00,
103.18,
90.00
|
R / Rfree (%)
|
23.766 /
29.049
|
Iron Binding Sites:
The binding sites of Iron atom in the X-Ray Structure of the Dimeric Cytochrome BC1 Complex From the Soil Bacterium Paracoccus Denitrificans at 2.7 Angstrom Resolution
(pdb code 2yiu). This binding sites where shown within
5.0 Angstroms radius around Iron atom.
In total 10 binding sites of Iron where determined in the
X-Ray Structure of the Dimeric Cytochrome BC1 Complex From the Soil Bacterium Paracoccus Denitrificans at 2.7 Angstrom Resolution, PDB code: 2yiu:
Jump to Iron binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
10;
Iron binding site 1 out
of 10 in 2yiu
Go back to
Iron Binding Sites List in 2yiu
Iron binding site 1 out
of 10 in the X-Ray Structure of the Dimeric Cytochrome BC1 Complex From the Soil Bacterium Paracoccus Denitrificans at 2.7 Angstrom Resolution
Mono view
Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 1 of X-Ray Structure of the Dimeric Cytochrome BC1 Complex From the Soil Bacterium Paracoccus Denitrificans at 2.7 Angstrom Resolution within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe500
b:12.6
occ:1.00
|
FE
|
A:HEM500
|
0.0
|
12.6
|
1.0
|
NE2
|
A:HIS198
|
1.8
|
8.2
|
1.0
|
NE2
|
A:HIS97
|
1.9
|
7.8
|
1.0
|
NA
|
A:HEM500
|
2.0
|
12.9
|
1.0
|
NB
|
A:HEM500
|
2.1
|
14.2
|
1.0
|
ND
|
A:HEM500
|
2.1
|
14.4
|
1.0
|
NC
|
A:HEM500
|
2.1
|
16.7
|
1.0
|
CE1
|
A:HIS97
|
2.8
|
9.4
|
1.0
|
CE1
|
A:HIS198
|
2.8
|
10.8
|
1.0
|
CD2
|
A:HIS198
|
2.9
|
12.4
|
1.0
|
C1A
|
A:HEM500
|
3.0
|
13.9
|
1.0
|
CD2
|
A:HIS97
|
3.0
|
8.7
|
1.0
|
C4B
|
A:HEM500
|
3.0
|
13.3
|
1.0
|
C4A
|
A:HEM500
|
3.1
|
12.0
|
1.0
|
C4D
|
A:HEM500
|
3.1
|
13.4
|
1.0
|
C1B
|
A:HEM500
|
3.1
|
13.2
|
1.0
|
C4C
|
A:HEM500
|
3.1
|
16.4
|
1.0
|
C1D
|
A:HEM500
|
3.1
|
13.7
|
1.0
|
C1C
|
A:HEM500
|
3.1
|
16.0
|
1.0
|
CHA
|
A:HEM500
|
3.4
|
12.7
|
1.0
|
CHC
|
A:HEM500
|
3.4
|
15.1
|
1.0
|
CHB
|
A:HEM500
|
3.5
|
13.1
|
1.0
|
CHD
|
A:HEM500
|
3.5
|
14.4
|
1.0
|
ND1
|
A:HIS198
|
3.9
|
11.5
|
1.0
|
ND1
|
A:HIS97
|
3.9
|
10.5
|
1.0
|
CG
|
A:HIS198
|
4.0
|
12.4
|
1.0
|
CG
|
A:HIS97
|
4.1
|
9.9
|
1.0
|
C2A
|
A:HEM500
|
4.2
|
16.1
|
1.0
|
C3B
|
A:HEM500
|
4.3
|
13.9
|
1.0
|
C3A
|
A:HEM500
|
4.3
|
14.6
|
1.0
|
C2B
|
A:HEM500
|
4.3
|
14.2
|
1.0
|
C3C
|
A:HEM500
|
4.3
|
17.6
|
1.0
|
C3D
|
A:HEM500
|
4.3
|
13.0
|
1.0
|
C2C
|
A:HEM500
|
4.3
|
17.5
|
1.0
|
C2D
|
A:HEM500
|
4.4
|
15.7
|
1.0
|
CA
|
A:GLY146
|
4.7
|
14.4
|
1.0
|
NE2
|
A:GLN58
|
4.8
|
15.1
|
1.0
|
|
Iron binding site 2 out
of 10 in 2yiu
Go back to
Iron Binding Sites List in 2yiu
Iron binding site 2 out
of 10 in the X-Ray Structure of the Dimeric Cytochrome BC1 Complex From the Soil Bacterium Paracoccus Denitrificans at 2.7 Angstrom Resolution
Mono view
Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 2 of X-Ray Structure of the Dimeric Cytochrome BC1 Complex From the Soil Bacterium Paracoccus Denitrificans at 2.7 Angstrom Resolution within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe501
b:16.0
occ:1.00
|
FE
|
A:HEM501
|
0.0
|
16.0
|
1.0
|
NC
|
A:HEM501
|
2.0
|
9.9
|
1.0
|
NA
|
A:HEM501
|
2.0
|
13.7
|
1.0
|
NB
|
A:HEM501
|
2.0
|
14.8
|
1.0
|
NE2
|
A:HIS111
|
2.1
|
17.4
|
1.0
|
ND
|
A:HEM501
|
2.1
|
12.3
|
1.0
|
NE2
|
A:HIS212
|
2.1
|
16.7
|
1.0
|
C1C
|
A:HEM501
|
3.0
|
13.2
|
1.0
|
C1A
|
A:HEM501
|
3.0
|
14.9
|
1.0
|
CE1
|
A:HIS111
|
3.0
|
18.0
|
1.0
|
C4B
|
A:HEM501
|
3.0
|
14.4
|
1.0
|
C4A
|
A:HEM501
|
3.0
|
13.2
|
1.0
|
C4C
|
A:HEM501
|
3.0
|
11.3
|
1.0
|
C1B
|
A:HEM501
|
3.1
|
14.3
|
1.0
|
C4D
|
A:HEM501
|
3.1
|
14.4
|
1.0
|
CE1
|
A:HIS212
|
3.1
|
18.5
|
1.0
|
CD2
|
A:HIS212
|
3.1
|
16.7
|
1.0
|
CD2
|
A:HIS111
|
3.1
|
17.3
|
1.0
|
C1D
|
A:HEM501
|
3.1
|
12.6
|
1.0
|
CHC
|
A:HEM501
|
3.3
|
14.9
|
1.0
|
CHA
|
A:HEM501
|
3.4
|
15.5
|
1.0
|
CHB
|
A:HEM501
|
3.4
|
14.3
|
1.0
|
CHD
|
A:HEM501
|
3.5
|
12.7
|
1.0
|
ND1
|
A:HIS111
|
4.1
|
18.0
|
1.0
|
C2C
|
A:HEM501
|
4.2
|
12.6
|
1.0
|
C2A
|
A:HEM501
|
4.2
|
11.8
|
1.0
|
C3A
|
A:HEM501
|
4.2
|
13.2
|
1.0
|
C3B
|
A:HEM501
|
4.2
|
16.6
|
1.0
|
ND1
|
A:HIS212
|
4.2
|
18.4
|
1.0
|
C3C
|
A:HEM501
|
4.2
|
10.8
|
1.0
|
CG
|
A:HIS111
|
4.2
|
16.5
|
1.0
|
CG
|
A:HIS212
|
4.3
|
18.6
|
1.0
|
C2B
|
A:HEM501
|
4.3
|
14.4
|
1.0
|
C3D
|
A:HEM501
|
4.4
|
15.2
|
1.0
|
C2D
|
A:HEM501
|
4.4
|
14.2
|
1.0
|
CD1
|
A:LEU51
|
4.8
|
14.1
|
1.0
|
|
Iron binding site 3 out
of 10 in 2yiu
Go back to
Iron Binding Sites List in 2yiu
Iron binding site 3 out
of 10 in the X-Ray Structure of the Dimeric Cytochrome BC1 Complex From the Soil Bacterium Paracoccus Denitrificans at 2.7 Angstrom Resolution
Mono view
Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 3 of X-Ray Structure of the Dimeric Cytochrome BC1 Complex From the Soil Bacterium Paracoccus Denitrificans at 2.7 Angstrom Resolution within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Fe500
b:28.2
occ:1.00
|
FE
|
B:HEC500
|
0.0
|
28.2
|
1.0
|
ND
|
B:HEC500
|
2.0
|
25.9
|
1.0
|
NC
|
B:HEC500
|
2.0
|
26.2
|
1.0
|
NA
|
B:HEC500
|
2.0
|
25.3
|
1.0
|
NE2
|
B:HIS86
|
2.1
|
33.8
|
1.0
|
NB
|
B:HEC500
|
2.1
|
25.6
|
1.0
|
SD
|
B:MET210
|
2.3
|
39.6
|
1.0
|
CD2
|
B:HIS86
|
2.9
|
32.0
|
1.0
|
C1D
|
B:HEC500
|
3.0
|
27.9
|
1.0
|
C4D
|
B:HEC500
|
3.0
|
27.5
|
1.0
|
C4C
|
B:HEC500
|
3.0
|
27.1
|
1.0
|
C4A
|
B:HEC500
|
3.0
|
26.8
|
1.0
|
C1C
|
B:HEC500
|
3.0
|
26.5
|
1.0
|
C1A
|
B:HEC500
|
3.1
|
26.6
|
1.0
|
C4B
|
B:HEC500
|
3.1
|
25.8
|
1.0
|
C1B
|
B:HEC500
|
3.1
|
24.2
|
1.0
|
CE1
|
B:HIS86
|
3.2
|
34.3
|
1.0
|
CHD
|
B:HEC500
|
3.4
|
27.9
|
1.0
|
CE
|
B:MET210
|
3.4
|
32.2
|
1.0
|
CHA
|
B:HEC500
|
3.4
|
26.3
|
1.0
|
CG
|
B:MET210
|
3.4
|
37.7
|
1.0
|
CHB
|
B:HEC500
|
3.5
|
26.2
|
1.0
|
CHC
|
B:HEC500
|
3.5
|
25.5
|
1.0
|
CB
|
B:MET210
|
4.0
|
38.4
|
1.0
|
CG
|
B:HIS86
|
4.1
|
32.0
|
1.0
|
C2D
|
B:HEC500
|
4.2
|
29.8
|
1.0
|
C3D
|
B:HEC500
|
4.2
|
30.4
|
1.0
|
ND1
|
B:HIS86
|
4.2
|
33.4
|
1.0
|
C3C
|
B:HEC500
|
4.2
|
26.2
|
1.0
|
C2C
|
B:HEC500
|
4.2
|
25.4
|
1.0
|
C3A
|
B:HEC500
|
4.3
|
27.0
|
1.0
|
C2A
|
B:HEC500
|
4.3
|
27.7
|
1.0
|
C3B
|
B:HEC500
|
4.4
|
24.5
|
1.0
|
C2B
|
B:HEC500
|
4.4
|
22.6
|
1.0
|
|
Iron binding site 4 out
of 10 in 2yiu
Go back to
Iron Binding Sites List in 2yiu
Iron binding site 4 out
of 10 in the X-Ray Structure of the Dimeric Cytochrome BC1 Complex From the Soil Bacterium Paracoccus Denitrificans at 2.7 Angstrom Resolution
Mono view
Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 4 of X-Ray Structure of the Dimeric Cytochrome BC1 Complex From the Soil Bacterium Paracoccus Denitrificans at 2.7 Angstrom Resolution within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Fe500
b:26.6
occ:1.00
|
FE1
|
C:FES500
|
0.0
|
26.6
|
1.0
|
ND1
|
C:HIS134
|
2.0
|
13.9
|
1.0
|
ND1
|
C:HIS155
|
2.1
|
20.8
|
1.0
|
S1
|
C:FES500
|
2.2
|
26.6
|
1.0
|
S2
|
C:FES500
|
2.2
|
28.9
|
1.0
|
CG
|
C:HIS155
|
2.9
|
21.3
|
1.0
|
CE1
|
C:HIS134
|
3.0
|
12.3
|
1.0
|
CG
|
C:HIS134
|
3.0
|
13.1
|
1.0
|
FE2
|
C:FES500
|
3.1
|
22.7
|
1.0
|
CB
|
C:HIS155
|
3.1
|
21.2
|
1.0
|
CE1
|
C:HIS155
|
3.1
|
19.2
|
1.0
|
CB
|
C:HIS134
|
3.4
|
12.3
|
1.0
|
N
|
C:HIS155
|
3.4
|
20.8
|
1.0
|
CA
|
C:HIS155
|
3.8
|
21.9
|
1.0
|
CD2
|
C:HIS155
|
4.1
|
20.3
|
1.0
|
C
|
C:CYS154
|
4.1
|
20.1
|
1.0
|
NE2
|
C:HIS134
|
4.1
|
12.4
|
1.0
|
CD2
|
C:HIS134
|
4.1
|
12.1
|
1.0
|
NE2
|
C:HIS155
|
4.1
|
18.4
|
1.0
|
CB
|
C:CYS154
|
4.1
|
20.5
|
1.0
|
SG
|
C:CYS132
|
4.3
|
14.7
|
1.0
|
N
|
C:LEU135
|
4.4
|
11.9
|
1.0
|
CB
|
C:LEU135
|
4.4
|
11.6
|
1.0
|
CG
|
C:PRO169
|
4.6
|
21.3
|
1.0
|
CA
|
C:CYS154
|
4.6
|
20.4
|
1.0
|
O
|
C:CYS154
|
4.7
|
19.4
|
1.0
|
CA
|
C:HIS134
|
4.7
|
12.2
|
1.0
|
C
|
C:HIS155
|
4.7
|
22.2
|
1.0
|
CG
|
C:LEU135
|
4.7
|
13.3
|
1.0
|
SG
|
C:CYS152
|
4.8
|
20.2
|
1.0
|
CD1
|
C:LEU135
|
4.8
|
9.1
|
1.0
|
C
|
C:HIS134
|
4.8
|
12.3
|
1.0
|
|
Iron binding site 5 out
of 10 in 2yiu
Go back to
Iron Binding Sites List in 2yiu
Iron binding site 5 out
of 10 in the X-Ray Structure of the Dimeric Cytochrome BC1 Complex From the Soil Bacterium Paracoccus Denitrificans at 2.7 Angstrom Resolution
Mono view
Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 5 of X-Ray Structure of the Dimeric Cytochrome BC1 Complex From the Soil Bacterium Paracoccus Denitrificans at 2.7 Angstrom Resolution within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Fe500
b:22.7
occ:1.00
|
FE2
|
C:FES500
|
0.0
|
22.7
|
1.0
|
SG
|
C:CYS152
|
2.1
|
20.2
|
1.0
|
S2
|
C:FES500
|
2.2
|
28.9
|
1.0
|
S1
|
C:FES500
|
2.2
|
26.6
|
1.0
|
SG
|
C:CYS132
|
2.2
|
14.7
|
1.0
|
CB
|
C:CYS132
|
2.9
|
15.5
|
1.0
|
FE1
|
C:FES500
|
3.1
|
26.6
|
1.0
|
CB
|
C:CYS152
|
3.1
|
18.4
|
1.0
|
CB
|
C:HIS134
|
4.0
|
12.3
|
1.0
|
CB
|
C:CYS154
|
4.3
|
20.5
|
1.0
|
CB
|
C:CYS137
|
4.3
|
16.6
|
1.0
|
N
|
C:HIS155
|
4.3
|
20.8
|
1.0
|
CA
|
C:CYS132
|
4.4
|
15.5
|
1.0
|
CA
|
C:CYS152
|
4.4
|
19.2
|
1.0
|
OG
|
C:SER157
|
4.4
|
18.0
|
1.0
|
O
|
C:CYS152
|
4.5
|
20.5
|
1.0
|
ND1
|
C:HIS134
|
4.5
|
13.9
|
1.0
|
CB
|
C:SER157
|
4.5
|
20.7
|
1.0
|
C
|
C:CYS152
|
4.6
|
19.8
|
1.0
|
N
|
C:CYS154
|
4.6
|
20.2
|
1.0
|
ND1
|
C:HIS155
|
4.7
|
20.8
|
1.0
|
N
|
C:CYS137
|
4.7
|
15.9
|
1.0
|
O
|
C:CYS137
|
4.7
|
18.0
|
1.0
|
CG
|
C:HIS134
|
4.8
|
13.1
|
1.0
|
CA
|
C:CYS154
|
4.8
|
20.4
|
1.0
|
N
|
C:LEU135
|
4.9
|
11.9
|
1.0
|
C
|
C:CYS132
|
4.9
|
15.6
|
1.0
|
N
|
C:HIS134
|
4.9
|
12.6
|
1.0
|
CA
|
C:CYS137
|
5.0
|
16.6
|
1.0
|
CA
|
C:HIS134
|
5.0
|
12.2
|
1.0
|
|
Iron binding site 6 out
of 10 in 2yiu
Go back to
Iron Binding Sites List in 2yiu
Iron binding site 6 out
of 10 in the X-Ray Structure of the Dimeric Cytochrome BC1 Complex From the Soil Bacterium Paracoccus Denitrificans at 2.7 Angstrom Resolution
Mono view
Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 6 of X-Ray Structure of the Dimeric Cytochrome BC1 Complex From the Soil Bacterium Paracoccus Denitrificans at 2.7 Angstrom Resolution within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Fe500
b:12.1
occ:1.00
|
FE
|
D:HEM500
|
0.0
|
12.1
|
1.0
|
NE2
|
D:HIS198
|
1.9
|
4.5
|
1.0
|
NE2
|
D:HIS97
|
1.9
|
8.8
|
1.0
|
ND
|
D:HEM500
|
2.0
|
14.9
|
1.0
|
NB
|
D:HEM500
|
2.1
|
15.0
|
1.0
|
NA
|
D:HEM500
|
2.1
|
15.1
|
1.0
|
NC
|
D:HEM500
|
2.1
|
17.6
|
1.0
|
CE1
|
D:HIS97
|
2.8
|
10.8
|
1.0
|
CE1
|
D:HIS198
|
2.9
|
8.2
|
1.0
|
CD2
|
D:HIS198
|
3.0
|
8.4
|
1.0
|
C4B
|
D:HEM500
|
3.0
|
15.0
|
1.0
|
C4D
|
D:HEM500
|
3.0
|
14.9
|
1.0
|
C1A
|
D:HEM500
|
3.0
|
17.1
|
1.0
|
CD2
|
D:HIS97
|
3.1
|
7.4
|
1.0
|
C1D
|
D:HEM500
|
3.1
|
14.9
|
1.0
|
C1C
|
D:HEM500
|
3.1
|
17.8
|
1.0
|
C4C
|
D:HEM500
|
3.1
|
16.6
|
1.0
|
C4A
|
D:HEM500
|
3.1
|
14.9
|
1.0
|
C1B
|
D:HEM500
|
3.1
|
14.1
|
1.0
|
CHC
|
D:HEM500
|
3.4
|
16.6
|
1.0
|
CHA
|
D:HEM500
|
3.4
|
15.4
|
1.0
|
CHD
|
D:HEM500
|
3.5
|
15.4
|
1.0
|
CHB
|
D:HEM500
|
3.5
|
16.2
|
1.0
|
ND1
|
D:HIS97
|
4.0
|
10.4
|
1.0
|
ND1
|
D:HIS198
|
4.0
|
8.6
|
1.0
|
CG
|
D:HIS198
|
4.1
|
10.2
|
1.0
|
CG
|
D:HIS97
|
4.1
|
7.6
|
1.0
|
C3B
|
D:HEM500
|
4.2
|
14.2
|
1.0
|
C3D
|
D:HEM500
|
4.3
|
15.5
|
1.0
|
C2A
|
D:HEM500
|
4.3
|
17.4
|
1.0
|
C2D
|
D:HEM500
|
4.3
|
16.5
|
1.0
|
C3C
|
D:HEM500
|
4.3
|
18.4
|
1.0
|
C2C
|
D:HEM500
|
4.3
|
19.2
|
1.0
|
C3A
|
D:HEM500
|
4.3
|
16.2
|
1.0
|
C2B
|
D:HEM500
|
4.3
|
14.5
|
1.0
|
CA
|
D:GLY146
|
4.6
|
12.7
|
1.0
|
NE2
|
D:GLN58
|
4.7
|
13.4
|
1.0
|
|
Iron binding site 7 out
of 10 in 2yiu
Go back to
Iron Binding Sites List in 2yiu
Iron binding site 7 out
of 10 in the X-Ray Structure of the Dimeric Cytochrome BC1 Complex From the Soil Bacterium Paracoccus Denitrificans at 2.7 Angstrom Resolution
Mono view
Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 7 of X-Ray Structure of the Dimeric Cytochrome BC1 Complex From the Soil Bacterium Paracoccus Denitrificans at 2.7 Angstrom Resolution within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Fe501
b:16.9
occ:1.00
|
FE
|
D:HEM501
|
0.0
|
16.9
|
1.0
|
NC
|
D:HEM501
|
2.0
|
13.1
|
1.0
|
NE2
|
D:HIS111
|
2.0
|
17.6
|
1.0
|
NA
|
D:HEM501
|
2.0
|
18.1
|
1.0
|
NB
|
D:HEM501
|
2.0
|
17.4
|
1.0
|
ND
|
D:HEM501
|
2.2
|
14.7
|
1.0
|
NE2
|
D:HIS212
|
2.2
|
15.9
|
1.0
|
CE1
|
D:HIS111
|
3.0
|
18.8
|
1.0
|
C1C
|
D:HEM501
|
3.0
|
14.2
|
1.0
|
CD2
|
D:HIS111
|
3.0
|
17.9
|
1.0
|
C4B
|
D:HEM501
|
3.0
|
16.9
|
1.0
|
C1A
|
D:HEM501
|
3.0
|
19.5
|
1.0
|
C4A
|
D:HEM501
|
3.0
|
18.3
|
1.0
|
C4C
|
D:HEM501
|
3.1
|
12.2
|
1.0
|
C1B
|
D:HEM501
|
3.1
|
17.7
|
1.0
|
CD2
|
D:HIS212
|
3.1
|
16.0
|
1.0
|
C4D
|
D:HEM501
|
3.1
|
16.8
|
1.0
|
C1D
|
D:HEM501
|
3.2
|
13.5
|
1.0
|
CE1
|
D:HIS212
|
3.3
|
16.6
|
1.0
|
CHC
|
D:HEM501
|
3.4
|
16.1
|
1.0
|
CHB
|
D:HEM501
|
3.4
|
18.8
|
1.0
|
CHA
|
D:HEM501
|
3.4
|
19.2
|
1.0
|
CHD
|
D:HEM501
|
3.5
|
13.5
|
1.0
|
ND1
|
D:HIS111
|
4.1
|
18.6
|
1.0
|
CG
|
D:HIS111
|
4.1
|
17.9
|
1.0
|
C2C
|
D:HEM501
|
4.2
|
11.4
|
1.0
|
C2A
|
D:HEM501
|
4.2
|
18.5
|
1.0
|
C3B
|
D:HEM501
|
4.2
|
18.3
|
1.0
|
C3A
|
D:HEM501
|
4.3
|
19.2
|
1.0
|
C3C
|
D:HEM501
|
4.3
|
12.0
|
1.0
|
C2B
|
D:HEM501
|
4.3
|
17.6
|
1.0
|
CG
|
D:HIS212
|
4.3
|
17.8
|
1.0
|
ND1
|
D:HIS212
|
4.3
|
18.3
|
1.0
|
C3D
|
D:HEM501
|
4.4
|
17.3
|
1.0
|
C2D
|
D:HEM501
|
4.4
|
12.9
|
1.0
|
CD1
|
D:LEU51
|
4.5
|
14.5
|
1.0
|
|
Iron binding site 8 out
of 10 in 2yiu
Go back to
Iron Binding Sites List in 2yiu
Iron binding site 8 out
of 10 in the X-Ray Structure of the Dimeric Cytochrome BC1 Complex From the Soil Bacterium Paracoccus Denitrificans at 2.7 Angstrom Resolution
Mono view
Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 8 of X-Ray Structure of the Dimeric Cytochrome BC1 Complex From the Soil Bacterium Paracoccus Denitrificans at 2.7 Angstrom Resolution within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Fe500
b:32.2
occ:1.00
|
FE
|
E:HEC500
|
0.0
|
32.2
|
1.0
|
NB
|
E:HEC500
|
2.0
|
29.3
|
1.0
|
NC
|
E:HEC500
|
2.0
|
28.8
|
1.0
|
ND
|
E:HEC500
|
2.0
|
29.4
|
1.0
|
NA
|
E:HEC500
|
2.0
|
29.6
|
1.0
|
NE2
|
E:HIS86
|
2.2
|
32.5
|
1.0
|
SD
|
E:MET210
|
2.4
|
38.4
|
1.0
|
CD2
|
E:HIS86
|
3.0
|
30.7
|
1.0
|
C4A
|
E:HEC500
|
3.0
|
30.5
|
1.0
|
C1B
|
E:HEC500
|
3.0
|
28.8
|
1.0
|
C1D
|
E:HEC500
|
3.0
|
30.9
|
1.0
|
C1C
|
E:HEC500
|
3.0
|
28.9
|
1.0
|
C4C
|
E:HEC500
|
3.0
|
29.9
|
1.0
|
C4D
|
E:HEC500
|
3.0
|
29.0
|
1.0
|
C4B
|
E:HEC500
|
3.1
|
28.6
|
1.0
|
C1A
|
E:HEC500
|
3.1
|
30.4
|
1.0
|
CE1
|
E:HIS86
|
3.3
|
32.8
|
1.0
|
CHB
|
E:HEC500
|
3.4
|
30.1
|
1.0
|
CHD
|
E:HEC500
|
3.4
|
30.4
|
1.0
|
CHC
|
E:HEC500
|
3.4
|
28.2
|
1.0
|
CHA
|
E:HEC500
|
3.5
|
29.5
|
1.0
|
CE
|
E:MET210
|
3.6
|
36.6
|
1.0
|
CG
|
E:MET210
|
3.6
|
37.0
|
1.0
|
CG
|
E:HIS86
|
4.2
|
31.6
|
1.0
|
C2B
|
E:HEC500
|
4.2
|
27.7
|
1.0
|
C3A
|
E:HEC500
|
4.3
|
31.8
|
1.0
|
C3C
|
E:HEC500
|
4.3
|
30.4
|
1.0
|
C2D
|
E:HEC500
|
4.3
|
31.2
|
1.0
|
C3B
|
E:HEC500
|
4.3
|
27.8
|
1.0
|
C2C
|
E:HEC500
|
4.3
|
29.1
|
1.0
|
C3D
|
E:HEC500
|
4.3
|
29.7
|
1.0
|
CB
|
E:MET210
|
4.3
|
38.1
|
1.0
|
ND1
|
E:HIS86
|
4.3
|
32.6
|
1.0
|
C2A
|
E:HEC500
|
4.3
|
32.0
|
1.0
|
|
Iron binding site 9 out
of 10 in 2yiu
Go back to
Iron Binding Sites List in 2yiu
Iron binding site 9 out
of 10 in the X-Ray Structure of the Dimeric Cytochrome BC1 Complex From the Soil Bacterium Paracoccus Denitrificans at 2.7 Angstrom Resolution
Mono view
Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 9 of X-Ray Structure of the Dimeric Cytochrome BC1 Complex From the Soil Bacterium Paracoccus Denitrificans at 2.7 Angstrom Resolution within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
F:Fe500
b:23.0
occ:1.00
|
FE1
|
F:FES500
|
0.0
|
23.0
|
1.0
|
ND1
|
F:HIS155
|
2.0
|
20.0
|
1.0
|
ND1
|
F:HIS134
|
2.1
|
19.1
|
1.0
|
S1
|
F:FES500
|
2.2
|
20.4
|
1.0
|
S2
|
F:FES500
|
2.2
|
22.7
|
1.0
|
CG
|
F:HIS155
|
3.0
|
20.5
|
1.0
|
CE1
|
F:HIS155
|
3.0
|
18.1
|
1.0
|
FE2
|
F:FES500
|
3.1
|
16.3
|
1.0
|
CG
|
F:HIS134
|
3.1
|
17.4
|
1.0
|
CE1
|
F:HIS134
|
3.1
|
18.2
|
1.0
|
CB
|
F:HIS155
|
3.3
|
20.3
|
1.0
|
CB
|
F:HIS134
|
3.4
|
16.9
|
1.0
|
N
|
F:HIS155
|
3.5
|
19.8
|
1.0
|
C
|
F:CYS154
|
3.9
|
18.7
|
1.0
|
CA
|
F:HIS155
|
3.9
|
21.0
|
1.0
|
CB
|
F:CYS154
|
3.9
|
18.6
|
1.0
|
CD2
|
F:HIS155
|
4.1
|
19.1
|
1.0
|
NE2
|
F:HIS155
|
4.1
|
18.1
|
1.0
|
NE2
|
F:HIS134
|
4.2
|
17.8
|
1.0
|
CD2
|
F:HIS134
|
4.2
|
14.7
|
1.0
|
N
|
F:LEU135
|
4.4
|
14.0
|
1.0
|
CB
|
F:LEU135
|
4.4
|
13.0
|
1.0
|
CA
|
F:CYS154
|
4.5
|
18.2
|
1.0
|
O
|
F:CYS154
|
4.5
|
17.8
|
1.0
|
SG
|
F:CYS132
|
4.5
|
19.0
|
1.0
|
CA
|
F:HIS134
|
4.7
|
16.3
|
1.0
|
SG
|
F:CYS152
|
4.8
|
23.5
|
1.0
|
CG
|
F:PRO169
|
4.9
|
21.2
|
1.0
|
C
|
F:HIS155
|
4.9
|
21.6
|
1.0
|
CG
|
F:LEU135
|
4.9
|
13.4
|
1.0
|
CD1
|
F:LEU135
|
4.9
|
8.7
|
1.0
|
C
|
F:HIS134
|
4.9
|
15.4
|
1.0
|
CA
|
F:LEU135
|
4.9
|
13.6
|
1.0
|
|
Iron binding site 10 out
of 10 in 2yiu
Go back to
Iron Binding Sites List in 2yiu
Iron binding site 10 out
of 10 in the X-Ray Structure of the Dimeric Cytochrome BC1 Complex From the Soil Bacterium Paracoccus Denitrificans at 2.7 Angstrom Resolution
Mono view
Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 10 of X-Ray Structure of the Dimeric Cytochrome BC1 Complex From the Soil Bacterium Paracoccus Denitrificans at 2.7 Angstrom Resolution within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
F:Fe500
b:16.3
occ:1.00
|
FE2
|
F:FES500
|
0.0
|
16.3
|
1.0
|
S1
|
F:FES500
|
2.2
|
20.4
|
1.0
|
S2
|
F:FES500
|
2.2
|
22.7
|
1.0
|
SG
|
F:CYS152
|
2.2
|
23.5
|
1.0
|
SG
|
F:CYS132
|
2.3
|
19.0
|
1.0
|
CB
|
F:CYS132
|
3.0
|
19.8
|
1.0
|
FE1
|
F:FES500
|
3.1
|
23.0
|
1.0
|
CB
|
F:CYS152
|
3.2
|
17.5
|
1.0
|
CB
|
F:HIS134
|
3.9
|
16.9
|
1.0
|
CB
|
F:CYS137
|
4.2
|
17.3
|
1.0
|
CB
|
F:CYS154
|
4.2
|
18.6
|
1.0
|
OG
|
F:SER157
|
4.4
|
23.5
|
1.0
|
N
|
F:HIS155
|
4.4
|
19.8
|
1.0
|
CA
|
F:CYS132
|
4.5
|
19.9
|
1.0
|
O
|
F:CYS152
|
4.6
|
17.5
|
1.0
|
N
|
F:CYS137
|
4.6
|
16.0
|
1.0
|
CA
|
F:CYS152
|
4.6
|
18.1
|
1.0
|
N
|
F:CYS154
|
4.6
|
17.3
|
1.0
|
ND1
|
F:HIS134
|
4.6
|
19.1
|
1.0
|
CB
|
F:SER157
|
4.6
|
23.4
|
1.0
|
C
|
F:CYS152
|
4.7
|
17.2
|
1.0
|
CA
|
F:CYS154
|
4.7
|
18.2
|
1.0
|
CG
|
F:HIS134
|
4.8
|
17.4
|
1.0
|
CA
|
F:CYS137
|
4.8
|
17.3
|
1.0
|
ND1
|
F:HIS155
|
4.9
|
20.0
|
1.0
|
N
|
F:LEU135
|
4.9
|
14.0
|
1.0
|
N
|
F:HIS134
|
5.0
|
17.1
|
1.0
|
C
|
F:CYS132
|
5.0
|
19.3
|
1.0
|
CA
|
F:HIS134
|
5.0
|
16.3
|
1.0
|
|
Reference:
T.Kleinschroth,
M.Castellani,
C.H.Trinh,
N.Morgner,
B.Brutschy,
B.Ludwig,
C.Hunte.
X-Ray Structure of the Dimeric Cytochrome Bc(1) Complex From the Soil Bacterium Paracoccus Denitrificans at 2.7-A Resolution. Biochim.Biophys.Acta V.1807 1606 2011.
ISSN: ISSN 0006-3002
PubMed: 21996020
DOI: 10.1016/J.BBABIO.2011.09.017
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