Iron in PDB 29ya: Cryo-Em Structure of Rhodobacter Capsulatus Cytochrome BC1 Dimer with One Rieske Protein in the C Position and One in the B Position and Quinone in the Quinone Oxidation Site
Enzymatic activity of Cryo-Em Structure of Rhodobacter Capsulatus Cytochrome BC1 Dimer with One Rieske Protein in the C Position and One in the B Position and Quinone in the Quinone Oxidation Site
All present enzymatic activity of Cryo-Em Structure of Rhodobacter Capsulatus Cytochrome BC1 Dimer with One Rieske Protein in the C Position and One in the B Position and Quinone in the Quinone Oxidation Site:
7.1.1.8;
Iron Binding Sites:
The binding sites of Iron atom in the Cryo-Em Structure of Rhodobacter Capsulatus Cytochrome BC1 Dimer with One Rieske Protein in the C Position and One in the B Position and Quinone in the Quinone Oxidation Site
(pdb code 29ya). This binding sites where shown within
5.0 Angstroms radius around Iron atom.
In total 10 binding sites of Iron where determined in the
Cryo-Em Structure of Rhodobacter Capsulatus Cytochrome BC1 Dimer with One Rieske Protein in the C Position and One in the B Position and Quinone in the Quinone Oxidation Site, PDB code: 29ya:
Jump to Iron binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
10;
Iron binding site 1 out
of 10 in 29ya
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Iron Binding Sites List in 29ya
Iron binding site 1 out
of 10 in the Cryo-Em Structure of Rhodobacter Capsulatus Cytochrome BC1 Dimer with One Rieske Protein in the C Position and One in the B Position and Quinone in the Quinone Oxidation Site
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 1 of Cryo-Em Structure of Rhodobacter Capsulatus Cytochrome BC1 Dimer with One Rieske Protein in the C Position and One in the B Position and Quinone in the Quinone Oxidation Site within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe501
b:139.1
occ:1.00
|
FE1
|
A:FES501
|
0.0
|
139.1
|
1.0
|
|
S1
|
A:FES501
|
2.2
|
118.2
|
1.0
|
|
S2
|
A:FES501
|
2.2
|
112.1
|
1.0
|
|
SG
|
A:CYS153
|
2.3
|
115.8
|
1.0
|
|
SG
|
A:CYS133
|
2.3
|
117.7
|
1.0
|
|
FE2
|
A:FES501
|
2.7
|
135.3
|
1.0
|
|
CB
|
A:CYS133
|
2.7
|
105.8
|
1.0
|
|
CB
|
A:CYS153
|
3.5
|
112.3
|
1.0
|
|
CB
|
A:HIS135
|
3.7
|
107.8
|
1.0
|
|
CA
|
A:CYS133
|
4.2
|
99.1
|
1.0
|
|
CB
|
A:CYS138
|
4.2
|
106.7
|
1.0
|
|
ND1
|
A:HIS135
|
4.3
|
110.5
|
1.0
|
|
N
|
A:CYS138
|
4.4
|
96.5
|
1.0
|
|
CG
|
A:HIS135
|
4.5
|
108.4
|
1.0
|
|
N
|
A:LEU136
|
4.5
|
100.8
|
1.0
|
|
CB
|
A:CYS155
|
4.6
|
114.6
|
1.0
|
|
C
|
A:CYS133
|
4.6
|
101.5
|
1.0
|
|
N
|
A:HIS135
|
4.6
|
109.4
|
1.0
|
|
ND1
|
A:HIS156
|
4.6
|
114.6
|
1.0
|
|
OG
|
A:SER158
|
4.7
|
126.3
|
1.0
|
|
CA
|
A:HIS135
|
4.7
|
107.1
|
1.0
|
|
N
|
A:GLY137
|
4.8
|
103.3
|
1.0
|
|
CA
|
A:CYS138
|
4.8
|
98.1
|
1.0
|
|
O
|
A:CYS133
|
4.8
|
104.7
|
1.0
|
|
SG
|
A:CYS138
|
4.8
|
133.7
|
1.0
|
|
CB
|
A:SER158
|
4.9
|
127.5
|
1.0
|
|
CA
|
A:CYS153
|
4.9
|
115.3
|
1.0
|
|
N
|
A:CYS133
|
5.0
|
99.0
|
1.0
|
|
Iron binding site 2 out
of 10 in 29ya
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Iron Binding Sites List in 29ya
Iron binding site 2 out
of 10 in the Cryo-Em Structure of Rhodobacter Capsulatus Cytochrome BC1 Dimer with One Rieske Protein in the C Position and One in the B Position and Quinone in the Quinone Oxidation Site
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 2 of Cryo-Em Structure of Rhodobacter Capsulatus Cytochrome BC1 Dimer with One Rieske Protein in the C Position and One in the B Position and Quinone in the Quinone Oxidation Site within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe501
b:135.3
occ:1.00
|
FE2
|
A:FES501
|
0.0
|
135.3
|
1.0
|
|
ND1
|
A:HIS156
|
2.1
|
114.6
|
1.0
|
|
ND1
|
A:HIS135
|
2.2
|
110.5
|
1.0
|
|
S2
|
A:FES501
|
2.2
|
112.1
|
1.0
|
|
S1
|
A:FES501
|
2.2
|
118.2
|
1.0
|
|
FE1
|
A:FES501
|
2.7
|
139.1
|
1.0
|
|
CG
|
A:HIS156
|
3.0
|
113.0
|
1.0
|
|
CG
|
A:HIS135
|
3.1
|
108.4
|
1.0
|
|
CE1
|
A:HIS135
|
3.2
|
104.5
|
1.0
|
|
CE1
|
A:HIS156
|
3.2
|
108.0
|
1.0
|
|
CB
|
A:HIS156
|
3.2
|
110.3
|
1.0
|
|
CB
|
A:HIS135
|
3.4
|
107.8
|
1.0
|
|
N
|
A:HIS156
|
3.7
|
111.6
|
1.0
|
|
CB
|
A:CYS155
|
3.9
|
114.6
|
1.0
|
|
SG
|
A:CYS153
|
4.0
|
115.8
|
1.0
|
|
CA
|
A:HIS156
|
4.0
|
108.3
|
1.0
|
|
CD2
|
A:HIS156
|
4.1
|
108.9
|
1.0
|
|
NE2
|
A:HIS156
|
4.2
|
107.1
|
1.0
|
|
NE2
|
A:HIS135
|
4.2
|
102.3
|
1.0
|
|
CD2
|
A:HIS135
|
4.3
|
105.5
|
1.0
|
|
C
|
A:CYS155
|
4.3
|
114.7
|
1.0
|
|
N
|
A:LEU136
|
4.3
|
100.8
|
1.0
|
|
SG
|
A:CYS133
|
4.5
|
117.7
|
1.0
|
|
CB
|
A:LEU136
|
4.6
|
100.3
|
1.0
|
|
CA
|
A:CYS155
|
4.7
|
114.5
|
1.0
|
|
CA
|
A:HIS135
|
4.8
|
107.1
|
1.0
|
|
C
|
A:HIS156
|
4.8
|
114.7
|
1.0
|
|
OG
|
A:SER158
|
4.9
|
126.3
|
1.0
|
|
C
|
A:HIS135
|
4.9
|
104.2
|
1.0
|
|
CG
|
A:LEU136
|
4.9
|
96.7
|
1.0
|
|
Iron binding site 3 out
of 10 in 29ya
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Iron Binding Sites List in 29ya
Iron binding site 3 out
of 10 in the Cryo-Em Structure of Rhodobacter Capsulatus Cytochrome BC1 Dimer with One Rieske Protein in the C Position and One in the B Position and Quinone in the Quinone Oxidation Site
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 3 of Cryo-Em Structure of Rhodobacter Capsulatus Cytochrome BC1 Dimer with One Rieske Protein in the C Position and One in the B Position and Quinone in the Quinone Oxidation Site within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Fe501
b:78.7
occ:1.00
|
FE
|
B:HEM501
|
0.0
|
78.7
|
1.0
|
|
ND
|
B:HEM501
|
2.0
|
55.5
|
1.0
|
|
NB
|
B:HEM501
|
2.0
|
49.2
|
1.0
|
|
NC
|
B:HEM501
|
2.0
|
52.8
|
1.0
|
|
NA
|
B:HEM501
|
2.1
|
57.7
|
1.0
|
|
NE2
|
B:HIS97
|
2.2
|
57.5
|
1.0
|
|
NE2
|
B:HIS198
|
2.2
|
51.3
|
1.0
|
|
C1B
|
B:HEM501
|
3.0
|
50.5
|
1.0
|
|
C1D
|
B:HEM501
|
3.0
|
53.9
|
1.0
|
|
C4A
|
B:HEM501
|
3.0
|
53.5
|
1.0
|
|
C4C
|
B:HEM501
|
3.1
|
52.2
|
1.0
|
|
C4D
|
B:HEM501
|
3.1
|
52.6
|
1.0
|
|
C4B
|
B:HEM501
|
3.1
|
48.3
|
1.0
|
|
C1C
|
B:HEM501
|
3.1
|
50.9
|
1.0
|
|
C1A
|
B:HEM501
|
3.1
|
51.6
|
1.0
|
|
CE1
|
B:HIS198
|
3.1
|
49.0
|
1.0
|
|
CE1
|
B:HIS97
|
3.1
|
53.4
|
1.0
|
|
CD2
|
B:HIS97
|
3.2
|
59.3
|
1.0
|
|
CD2
|
B:HIS198
|
3.3
|
55.1
|
1.0
|
|
CHB
|
B:HEM501
|
3.4
|
50.8
|
1.0
|
|
CHD
|
B:HEM501
|
3.4
|
50.0
|
1.0
|
|
CHC
|
B:HEM501
|
3.4
|
49.4
|
1.0
|
|
CHA
|
B:HEM501
|
3.4
|
50.4
|
1.0
|
|
C2B
|
B:HEM501
|
4.3
|
52.5
|
1.0
|
|
C2D
|
B:HEM501
|
4.3
|
53.4
|
1.0
|
|
C3A
|
B:HEM501
|
4.3
|
50.8
|
1.0
|
|
ND1
|
B:HIS97
|
4.3
|
53.0
|
1.0
|
|
ND1
|
B:HIS198
|
4.3
|
51.6
|
1.0
|
|
C3B
|
B:HEM501
|
4.3
|
50.5
|
1.0
|
|
C3D
|
B:HEM501
|
4.3
|
55.6
|
1.0
|
|
C3C
|
B:HEM501
|
4.3
|
48.7
|
1.0
|
|
C2C
|
B:HEM501
|
4.3
|
46.5
|
1.0
|
|
C2A
|
B:HEM501
|
4.3
|
48.5
|
1.0
|
|
CG
|
B:HIS97
|
4.3
|
55.6
|
1.0
|
|
CG
|
B:HIS198
|
4.4
|
56.6
|
1.0
|
|
Iron binding site 4 out
of 10 in 29ya
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Iron Binding Sites List in 29ya
Iron binding site 4 out
of 10 in the Cryo-Em Structure of Rhodobacter Capsulatus Cytochrome BC1 Dimer with One Rieske Protein in the C Position and One in the B Position and Quinone in the Quinone Oxidation Site
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 4 of Cryo-Em Structure of Rhodobacter Capsulatus Cytochrome BC1 Dimer with One Rieske Protein in the C Position and One in the B Position and Quinone in the Quinone Oxidation Site within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Fe502
b:80.5
occ:1.00
|
FE
|
B:HEM502
|
0.0
|
80.5
|
1.0
|
|
ND
|
B:HEM502
|
2.0
|
65.5
|
1.0
|
|
NA
|
B:HEM502
|
2.0
|
64.1
|
1.0
|
|
NB
|
B:HEM502
|
2.0
|
57.0
|
1.0
|
|
NC
|
B:HEM502
|
2.0
|
64.8
|
1.0
|
|
NE2
|
B:HIS212
|
2.3
|
54.9
|
1.0
|
|
NE2
|
B:HIS111
|
2.3
|
58.8
|
1.0
|
|
C4D
|
B:HEM502
|
3.0
|
59.7
|
1.0
|
|
C1C
|
B:HEM502
|
3.0
|
56.3
|
1.0
|
|
C4C
|
B:HEM502
|
3.0
|
61.0
|
1.0
|
|
C4A
|
B:HEM502
|
3.1
|
65.0
|
1.0
|
|
C1D
|
B:HEM502
|
3.1
|
59.9
|
1.0
|
|
C1A
|
B:HEM502
|
3.1
|
61.0
|
1.0
|
|
CD2
|
B:HIS111
|
3.1
|
59.2
|
1.0
|
|
C1B
|
B:HEM502
|
3.1
|
54.5
|
1.0
|
|
C4B
|
B:HEM502
|
3.1
|
55.8
|
1.0
|
|
CE1
|
B:HIS212
|
3.2
|
61.2
|
1.0
|
|
CD2
|
B:HIS212
|
3.2
|
56.9
|
1.0
|
|
CHA
|
B:HEM502
|
3.4
|
57.3
|
1.0
|
|
CHD
|
B:HEM502
|
3.4
|
56.8
|
1.0
|
|
CHC
|
B:HEM502
|
3.4
|
54.6
|
1.0
|
|
CHB
|
B:HEM502
|
3.4
|
59.9
|
1.0
|
|
CE1
|
B:HIS111
|
3.5
|
62.2
|
1.0
|
|
C2C
|
B:HEM502
|
4.3
|
52.6
|
1.0
|
|
C3C
|
B:HEM502
|
4.3
|
59.4
|
1.0
|
|
C3D
|
B:HEM502
|
4.3
|
59.9
|
1.0
|
|
C3A
|
B:HEM502
|
4.3
|
59.2
|
1.0
|
|
C2A
|
B:HEM502
|
4.3
|
58.1
|
1.0
|
|
C2D
|
B:HEM502
|
4.3
|
61.5
|
1.0
|
|
C2B
|
B:HEM502
|
4.3
|
54.4
|
1.0
|
|
C3B
|
B:HEM502
|
4.3
|
52.6
|
1.0
|
|
ND1
|
B:HIS212
|
4.3
|
64.0
|
1.0
|
|
CG
|
B:HIS111
|
4.3
|
64.4
|
1.0
|
|
CG
|
B:HIS212
|
4.3
|
60.9
|
1.0
|
|
ND1
|
B:HIS111
|
4.5
|
72.4
|
1.0
|
|
Iron binding site 5 out
of 10 in 29ya
Go back to
Iron Binding Sites List in 29ya
Iron binding site 5 out
of 10 in the Cryo-Em Structure of Rhodobacter Capsulatus Cytochrome BC1 Dimer with One Rieske Protein in the C Position and One in the B Position and Quinone in the Quinone Oxidation Site
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 5 of Cryo-Em Structure of Rhodobacter Capsulatus Cytochrome BC1 Dimer with One Rieske Protein in the C Position and One in the B Position and Quinone in the Quinone Oxidation Site within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Fe501
b:96.2
occ:1.00
|
FE
|
C:HEC501
|
0.0
|
96.2
|
1.0
|
|
NA
|
C:HEC501
|
2.0
|
77.5
|
1.0
|
|
NC
|
C:HEC501
|
2.0
|
76.9
|
1.0
|
|
NB
|
C:HEC501
|
2.1
|
77.5
|
1.0
|
|
ND
|
C:HEC501
|
2.1
|
75.9
|
1.0
|
|
NE2
|
C:HIS38
|
2.2
|
70.7
|
1.0
|
|
SD
|
C:MET183
|
2.3
|
77.8
|
1.0
|
|
CE1
|
C:HIS38
|
3.0
|
68.7
|
1.0
|
|
C1A
|
C:HEC501
|
3.0
|
76.2
|
1.0
|
|
C4C
|
C:HEC501
|
3.1
|
76.2
|
1.0
|
|
C1C
|
C:HEC501
|
3.1
|
73.0
|
1.0
|
|
C4D
|
C:HEC501
|
3.1
|
73.6
|
1.0
|
|
C4B
|
C:HEC501
|
3.1
|
76.2
|
1.0
|
|
C4A
|
C:HEC501
|
3.1
|
72.9
|
1.0
|
|
C1D
|
C:HEC501
|
3.1
|
78.8
|
1.0
|
|
C1B
|
C:HEC501
|
3.1
|
71.6
|
1.0
|
|
CE
|
C:MET183
|
3.3
|
77.1
|
1.0
|
|
CD2
|
C:HIS38
|
3.4
|
74.4
|
1.0
|
|
CHA
|
C:HEC501
|
3.4
|
74.6
|
1.0
|
|
CHC
|
C:HEC501
|
3.4
|
70.4
|
1.0
|
|
CHD
|
C:HEC501
|
3.4
|
78.6
|
1.0
|
|
CG
|
C:MET183
|
3.4
|
75.4
|
1.0
|
|
CHB
|
C:HEC501
|
3.5
|
70.8
|
1.0
|
|
ND1
|
C:HIS38
|
4.2
|
65.2
|
1.0
|
|
CB
|
C:MET183
|
4.2
|
80.6
|
1.0
|
|
C3C
|
C:HEC501
|
4.3
|
73.7
|
1.0
|
|
C2C
|
C:HEC501
|
4.3
|
74.4
|
1.0
|
|
C2A
|
C:HEC501
|
4.3
|
74.8
|
1.0
|
|
C3A
|
C:HEC501
|
4.3
|
69.9
|
1.0
|
|
C3B
|
C:HEC501
|
4.3
|
73.9
|
1.0
|
|
C2B
|
C:HEC501
|
4.3
|
66.6
|
1.0
|
|
C3D
|
C:HEC501
|
4.3
|
78.3
|
1.0
|
|
C2D
|
C:HEC501
|
4.3
|
80.2
|
1.0
|
|
CG
|
C:HIS38
|
4.4
|
71.5
|
1.0
|
|
Iron binding site 6 out
of 10 in 29ya
Go back to
Iron Binding Sites List in 29ya
Iron binding site 6 out
of 10 in the Cryo-Em Structure of Rhodobacter Capsulatus Cytochrome BC1 Dimer with One Rieske Protein in the C Position and One in the B Position and Quinone in the Quinone Oxidation Site
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 6 of Cryo-Em Structure of Rhodobacter Capsulatus Cytochrome BC1 Dimer with One Rieske Protein in the C Position and One in the B Position and Quinone in the Quinone Oxidation Site within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Fe501
b:181.5
occ:1.00
|
FE1
|
D:FES501
|
0.0
|
181.5
|
1.0
|
|
S1
|
D:FES501
|
2.2
|
159.0
|
1.0
|
|
S2
|
D:FES501
|
2.2
|
160.0
|
1.0
|
|
SG
|
D:CYS153
|
2.3
|
153.3
|
1.0
|
|
SG
|
D:CYS133
|
2.3
|
146.5
|
1.0
|
|
FE2
|
D:FES501
|
2.7
|
171.8
|
1.0
|
|
CB
|
D:CYS133
|
3.2
|
137.1
|
1.0
|
|
CB
|
D:CYS153
|
3.4
|
145.5
|
1.0
|
|
CB
|
D:HIS135
|
3.9
|
143.6
|
1.0
|
|
CB
|
D:CYS138
|
3.9
|
159.3
|
1.0
|
|
O
|
D:CYS138
|
4.2
|
154.2
|
1.0
|
|
ND1
|
D:HIS135
|
4.3
|
146.7
|
1.0
|
|
ND1
|
D:HIS156
|
4.4
|
148.6
|
1.0
|
|
CB
|
D:CYS155
|
4.5
|
148.7
|
1.0
|
|
N
|
D:CYS138
|
4.5
|
139.3
|
1.0
|
|
CG
|
D:HIS135
|
4.6
|
144.2
|
1.0
|
|
N
|
D:LEU136
|
4.6
|
138.7
|
1.0
|
|
CA
|
D:CYS133
|
4.6
|
131.7
|
1.0
|
|
CA
|
D:CYS138
|
4.6
|
148.2
|
1.0
|
|
C
|
D:CYS138
|
4.8
|
152.0
|
1.0
|
|
CA
|
D:CYS153
|
4.8
|
143.5
|
1.0
|
|
SG
|
D:CYS138
|
4.8
|
178.1
|
1.0
|
|
N
|
D:HIS135
|
4.8
|
142.4
|
1.0
|
|
CB
|
D:SER158
|
4.9
|
144.2
|
1.0
|
|
CA
|
D:HIS135
|
4.9
|
139.8
|
1.0
|
|
N
|
D:HIS156
|
4.9
|
140.0
|
1.0
|
|
Iron binding site 7 out
of 10 in 29ya
Go back to
Iron Binding Sites List in 29ya
Iron binding site 7 out
of 10 in the Cryo-Em Structure of Rhodobacter Capsulatus Cytochrome BC1 Dimer with One Rieske Protein in the C Position and One in the B Position and Quinone in the Quinone Oxidation Site
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 7 of Cryo-Em Structure of Rhodobacter Capsulatus Cytochrome BC1 Dimer with One Rieske Protein in the C Position and One in the B Position and Quinone in the Quinone Oxidation Site within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Fe501
b:171.8
occ:1.00
|
FE2
|
D:FES501
|
0.0
|
171.8
|
1.0
|
|
ND1
|
D:HIS135
|
2.2
|
146.7
|
1.0
|
|
ND1
|
D:HIS156
|
2.2
|
148.6
|
1.0
|
|
S2
|
D:FES501
|
2.2
|
160.0
|
1.0
|
|
S1
|
D:FES501
|
2.2
|
159.0
|
1.0
|
|
FE1
|
D:FES501
|
2.7
|
181.5
|
1.0
|
|
CG
|
D:HIS156
|
2.9
|
143.2
|
1.0
|
|
CG
|
D:HIS135
|
3.0
|
144.2
|
1.0
|
|
CE1
|
D:HIS135
|
3.1
|
140.7
|
1.0
|
|
CB
|
D:HIS156
|
3.1
|
136.8
|
1.0
|
|
CE1
|
D:HIS156
|
3.2
|
142.7
|
1.0
|
|
CB
|
D:HIS135
|
3.3
|
143.6
|
1.0
|
|
N
|
D:HIS156
|
3.9
|
140.0
|
1.0
|
|
CD2
|
D:HIS156
|
4.1
|
136.4
|
1.0
|
|
CD2
|
D:HIS135
|
4.1
|
138.7
|
1.0
|
|
CA
|
D:HIS156
|
4.1
|
138.8
|
1.0
|
|
NE2
|
D:HIS135
|
4.1
|
135.1
|
1.0
|
|
NE2
|
D:HIS156
|
4.2
|
132.5
|
1.0
|
|
SG
|
D:CYS153
|
4.4
|
153.3
|
1.0
|
|
CB
|
D:CYS155
|
4.4
|
148.7
|
1.0
|
|
SG
|
D:CYS133
|
4.4
|
146.5
|
1.0
|
|
N
|
D:LEU136
|
4.5
|
138.7
|
1.0
|
|
C
|
D:CYS155
|
4.6
|
136.6
|
1.0
|
|
CG
|
D:PRO170
|
4.7
|
138.1
|
1.0
|
|
CA
|
D:HIS135
|
4.7
|
139.8
|
1.0
|
|
C
|
D:HIS156
|
4.9
|
141.1
|
1.0
|
|
C
|
D:HIS135
|
5.0
|
138.3
|
1.0
|
|
Iron binding site 8 out
of 10 in 29ya
Go back to
Iron Binding Sites List in 29ya
Iron binding site 8 out
of 10 in the Cryo-Em Structure of Rhodobacter Capsulatus Cytochrome BC1 Dimer with One Rieske Protein in the C Position and One in the B Position and Quinone in the Quinone Oxidation Site
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 8 of Cryo-Em Structure of Rhodobacter Capsulatus Cytochrome BC1 Dimer with One Rieske Protein in the C Position and One in the B Position and Quinone in the Quinone Oxidation Site within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Fe501
b:83.2
occ:1.00
|
FE
|
E:HEM501
|
0.0
|
83.2
|
1.0
|
|
ND
|
E:HEM501
|
2.0
|
59.3
|
1.0
|
|
NB
|
E:HEM501
|
2.0
|
54.1
|
1.0
|
|
NC
|
E:HEM501
|
2.0
|
60.1
|
1.0
|
|
NA
|
E:HEM501
|
2.1
|
59.5
|
1.0
|
|
NE2
|
E:HIS97
|
2.2
|
59.6
|
1.0
|
|
NE2
|
E:HIS198
|
2.2
|
50.3
|
1.0
|
|
CE1
|
E:HIS198
|
3.0
|
50.1
|
1.0
|
|
C1B
|
E:HEM501
|
3.0
|
50.9
|
1.0
|
|
C1D
|
E:HEM501
|
3.0
|
52.4
|
1.0
|
|
C4A
|
E:HEM501
|
3.0
|
55.8
|
1.0
|
|
C4C
|
E:HEM501
|
3.1
|
55.0
|
1.0
|
|
C4D
|
E:HEM501
|
3.1
|
56.4
|
1.0
|
|
C4B
|
E:HEM501
|
3.1
|
53.4
|
1.0
|
|
C1C
|
E:HEM501
|
3.1
|
57.3
|
1.0
|
|
CE1
|
E:HIS97
|
3.1
|
53.2
|
1.0
|
|
C1A
|
E:HEM501
|
3.1
|
53.0
|
1.0
|
|
CD2
|
E:HIS97
|
3.3
|
56.8
|
1.0
|
|
CD2
|
E:HIS198
|
3.4
|
55.0
|
1.0
|
|
CHB
|
E:HEM501
|
3.4
|
50.2
|
1.0
|
|
CHD
|
E:HEM501
|
3.4
|
50.2
|
1.0
|
|
CHC
|
E:HEM501
|
3.4
|
51.9
|
1.0
|
|
CHA
|
E:HEM501
|
3.4
|
53.6
|
1.0
|
|
ND1
|
E:HIS198
|
4.2
|
55.6
|
1.0
|
|
C2D
|
E:HEM501
|
4.3
|
49.9
|
1.0
|
|
C2B
|
E:HEM501
|
4.3
|
53.5
|
1.0
|
|
C3A
|
E:HEM501
|
4.3
|
54.2
|
1.0
|
|
ND1
|
E:HIS97
|
4.3
|
53.1
|
1.0
|
|
C3D
|
E:HEM501
|
4.3
|
55.5
|
1.0
|
|
C3B
|
E:HEM501
|
4.3
|
52.8
|
1.0
|
|
C3C
|
E:HEM501
|
4.3
|
52.0
|
1.0
|
|
C2C
|
E:HEM501
|
4.3
|
52.3
|
1.0
|
|
C2A
|
E:HEM501
|
4.3
|
50.3
|
1.0
|
|
CG
|
E:HIS97
|
4.4
|
55.1
|
1.0
|
|
CG
|
E:HIS198
|
4.4
|
57.1
|
1.0
|
|
Iron binding site 9 out
of 10 in 29ya
Go back to
Iron Binding Sites List in 29ya
Iron binding site 9 out
of 10 in the Cryo-Em Structure of Rhodobacter Capsulatus Cytochrome BC1 Dimer with One Rieske Protein in the C Position and One in the B Position and Quinone in the Quinone Oxidation Site
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 9 of Cryo-Em Structure of Rhodobacter Capsulatus Cytochrome BC1 Dimer with One Rieske Protein in the C Position and One in the B Position and Quinone in the Quinone Oxidation Site within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Fe502
b:80.8
occ:1.00
|
FE
|
E:HEM502
|
0.0
|
80.8
|
1.0
|
|
ND
|
E:HEM502
|
2.0
|
64.3
|
1.0
|
|
NA
|
E:HEM502
|
2.0
|
67.7
|
1.0
|
|
NB
|
E:HEM502
|
2.0
|
59.2
|
1.0
|
|
NC
|
E:HEM502
|
2.0
|
60.1
|
1.0
|
|
NE2
|
E:HIS111
|
2.3
|
60.2
|
1.0
|
|
NE2
|
E:HIS212
|
2.3
|
56.1
|
1.0
|
|
C4C
|
E:HEM502
|
3.0
|
58.6
|
1.0
|
|
C1D
|
E:HEM502
|
3.0
|
57.1
|
1.0
|
|
C4A
|
E:HEM502
|
3.0
|
68.3
|
1.0
|
|
C1B
|
E:HEM502
|
3.1
|
60.4
|
1.0
|
|
C4D
|
E:HEM502
|
3.1
|
58.1
|
1.0
|
|
C1C
|
E:HEM502
|
3.1
|
52.6
|
1.0
|
|
C1A
|
E:HEM502
|
3.1
|
61.8
|
1.0
|
|
C4B
|
E:HEM502
|
3.1
|
58.1
|
1.0
|
|
CD2
|
E:HIS111
|
3.1
|
58.6
|
1.0
|
|
CD2
|
E:HIS212
|
3.2
|
56.0
|
1.0
|
|
CE1
|
E:HIS212
|
3.3
|
56.7
|
1.0
|
|
CHD
|
E:HEM502
|
3.4
|
54.8
|
1.0
|
|
CE1
|
E:HIS111
|
3.4
|
60.8
|
1.0
|
|
CHB
|
E:HEM502
|
3.4
|
63.6
|
1.0
|
|
CHA
|
E:HEM502
|
3.4
|
56.0
|
1.0
|
|
CHC
|
E:HEM502
|
3.4
|
51.7
|
1.0
|
|
C3C
|
E:HEM502
|
4.3
|
57.7
|
1.0
|
|
C2C
|
E:HEM502
|
4.3
|
53.5
|
1.0
|
|
C3A
|
E:HEM502
|
4.3
|
66.2
|
1.0
|
|
C2D
|
E:HEM502
|
4.3
|
58.0
|
1.0
|
|
C3D
|
E:HEM502
|
4.3
|
57.8
|
1.0
|
|
C2A
|
E:HEM502
|
4.3
|
64.2
|
1.0
|
|
C2B
|
E:HEM502
|
4.3
|
58.9
|
1.0
|
|
C3B
|
E:HEM502
|
4.3
|
61.1
|
1.0
|
|
CG
|
E:HIS111
|
4.3
|
56.2
|
1.0
|
|
CG
|
E:HIS212
|
4.3
|
61.2
|
1.0
|
|
ND1
|
E:HIS212
|
4.4
|
64.3
|
1.0
|
|
ND1
|
E:HIS111
|
4.4
|
64.3
|
1.0
|
|
Iron binding site 10 out
of 10 in 29ya
Go back to
Iron Binding Sites List in 29ya
Iron binding site 10 out
of 10 in the Cryo-Em Structure of Rhodobacter Capsulatus Cytochrome BC1 Dimer with One Rieske Protein in the C Position and One in the B Position and Quinone in the Quinone Oxidation Site
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 10 of Cryo-Em Structure of Rhodobacter Capsulatus Cytochrome BC1 Dimer with One Rieske Protein in the C Position and One in the B Position and Quinone in the Quinone Oxidation Site within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
F:Fe501
b:94.8
occ:1.00
|
FE
|
F:HEC501
|
0.0
|
94.8
|
1.0
|
|
NA
|
F:HEC501
|
2.0
|
71.7
|
1.0
|
|
NC
|
F:HEC501
|
2.0
|
78.2
|
1.0
|
|
NB
|
F:HEC501
|
2.1
|
75.7
|
1.0
|
|
ND
|
F:HEC501
|
2.1
|
81.0
|
1.0
|
|
NE2
|
F:HIS38
|
2.2
|
71.3
|
1.0
|
|
SD
|
F:MET183
|
2.3
|
75.9
|
1.0
|
|
CE1
|
F:HIS38
|
3.0
|
67.7
|
1.0
|
|
C1A
|
F:HEC501
|
3.0
|
72.8
|
1.0
|
|
C4C
|
F:HEC501
|
3.1
|
76.7
|
1.0
|
|
C1C
|
F:HEC501
|
3.1
|
74.5
|
1.0
|
|
C4D
|
F:HEC501
|
3.1
|
77.1
|
1.0
|
|
C4A
|
F:HEC501
|
3.1
|
70.2
|
1.0
|
|
C4B
|
F:HEC501
|
3.1
|
76.4
|
1.0
|
|
C1D
|
F:HEC501
|
3.1
|
81.1
|
1.0
|
|
C1B
|
F:HEC501
|
3.1
|
68.9
|
1.0
|
|
CE
|
F:MET183
|
3.3
|
73.3
|
1.0
|
|
CD2
|
F:HIS38
|
3.3
|
74.4
|
1.0
|
|
CG
|
F:MET183
|
3.4
|
79.8
|
1.0
|
|
CHA
|
F:HEC501
|
3.4
|
73.5
|
1.0
|
|
CHD
|
F:HEC501
|
3.4
|
80.5
|
1.0
|
|
CHC
|
F:HEC501
|
3.4
|
72.1
|
1.0
|
|
CHB
|
F:HEC501
|
3.5
|
67.7
|
1.0
|
|
ND1
|
F:HIS38
|
4.2
|
67.7
|
1.0
|
|
CB
|
F:MET183
|
4.2
|
80.3
|
1.0
|
|
C3C
|
F:HEC501
|
4.3
|
77.5
|
1.0
|
|
C2C
|
F:HEC501
|
4.3
|
75.9
|
1.0
|
|
C2A
|
F:HEC501
|
4.3
|
71.4
|
1.0
|
|
C3A
|
F:HEC501
|
4.3
|
68.8
|
1.0
|
|
C3B
|
F:HEC501
|
4.3
|
74.1
|
1.0
|
|
C2B
|
F:HEC501
|
4.3
|
67.6
|
1.0
|
|
C3D
|
F:HEC501
|
4.3
|
76.8
|
1.0
|
|
C2D
|
F:HEC501
|
4.3
|
80.1
|
1.0
|
|
CG
|
F:HIS38
|
4.4
|
72.1
|
1.0
|
|
Reference:
R.Pietras,
A.Wojcik-Augustyn,
B.Mielecki,
M.Sarewicz,
M.Jaciuk,
L.Koziej,
S.Glatt,
A.Osyczka.
Distinct Ubiquinone Binding at the Oxidation and Reduction Sites of Cytochrome Bc 1. Proc.Natl.Acad.Sci.Usa V. 123 42123 2026.
ISSN: ESSN 1091-6490
PubMed: 42679026
DOI: 10.1073/PNAS.2618242123
Page generated: Sun Oct 4 09:43:24 2026
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