Iron in PDB 2d2c: Crystal Structure of Cytochrome B6F Complex with Dbmib From M. Laminosus
Enzymatic activity of Crystal Structure of Cytochrome B6F Complex with Dbmib From M. Laminosus
All present enzymatic activity of Crystal Structure of Cytochrome B6F Complex with Dbmib From M. Laminosus:
1.10.99.1;
Protein crystallography data
The structure of Crystal Structure of Cytochrome B6F Complex with Dbmib From M. Laminosus, PDB code: 2d2c
was solved by
J.Yan,
G.Kurisu,
W.A.Cramer,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
|
Resolution Low / High (Å)
|
24.76 /
3.80
|
|
Space group
|
P 61
|
|
Cell size a, b, c (Å), α, β, γ (°)
|
156.587,
156.587,
361.786,
90.00,
90.00,
120.00
|
|
R / Rfree (%)
|
27.6 /
37.8
|
Other elements in 2d2c:
The structure of Crystal Structure of Cytochrome B6F Complex with Dbmib From M. Laminosus also contains other interesting chemical elements:
Iron Binding Sites:
Pages:
>>> Page 1 <<<
Page 2, Binding sites: 11 -
12;
Binding sites:
The binding sites of Iron atom in the Crystal Structure of Cytochrome B6F Complex with Dbmib From M. Laminosus
(pdb code 2d2c). This binding sites where shown within
5.0 Angstroms radius around Iron atom.
In total 12 binding sites of Iron where determined in the
Crystal Structure of Cytochrome B6F Complex with Dbmib From M. Laminosus, PDB code: 2d2c:
Jump to Iron binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
10;
Iron binding site 1 out
of 12 in 2d2c
Go back to
Iron Binding Sites List in 2d2c
Iron binding site 1 out
of 12 in the Crystal Structure of Cytochrome B6F Complex with Dbmib From M. Laminosus
 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 Cytochrome B6F Complex with Dbmib From M. Laminosus within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe301
b:31.4
occ:1.00
|
FE
|
A:HEM301
|
0.0
|
31.4
|
1.0
|
|
ND
|
A:HEM301
|
2.0
|
49.0
|
1.0
|
|
NE2
|
A:HIS187
|
2.0
|
78.3
|
1.0
|
|
NB
|
A:HEM301
|
2.0
|
49.0
|
1.0
|
|
NA
|
A:HEM301
|
2.0
|
49.0
|
1.0
|
|
NC
|
A:HEM301
|
2.1
|
49.0
|
1.0
|
|
NE2
|
A:HIS86
|
2.2
|
8.2
|
1.0
|
|
CE1
|
A:HIS187
|
2.7
|
78.3
|
1.0
|
|
CE1
|
A:HIS86
|
2.7
|
8.2
|
1.0
|
|
C4D
|
A:HEM301
|
3.0
|
49.0
|
1.0
|
|
C1D
|
A:HEM301
|
3.0
|
49.0
|
1.0
|
|
C4C
|
A:HEM301
|
3.1
|
49.0
|
1.0
|
|
C1A
|
A:HEM301
|
3.1
|
49.0
|
1.0
|
|
C4B
|
A:HEM301
|
3.1
|
49.0
|
1.0
|
|
C1B
|
A:HEM301
|
3.1
|
49.0
|
1.0
|
|
C4A
|
A:HEM301
|
3.1
|
49.0
|
1.0
|
|
C1C
|
A:HEM301
|
3.1
|
49.0
|
1.0
|
|
CD2
|
A:HIS187
|
3.2
|
78.3
|
1.0
|
|
CHA
|
A:HEM301
|
3.4
|
49.0
|
1.0
|
|
CHD
|
A:HEM301
|
3.4
|
49.0
|
1.0
|
|
CHC
|
A:HEM301
|
3.4
|
49.0
|
1.0
|
|
CHB
|
A:HEM301
|
3.4
|
49.0
|
1.0
|
|
CD2
|
A:HIS86
|
3.5
|
8.2
|
1.0
|
|
ND1
|
A:HIS187
|
3.9
|
78.3
|
1.0
|
|
ND1
|
A:HIS86
|
4.0
|
8.2
|
1.0
|
|
CG
|
A:HIS187
|
4.2
|
78.3
|
1.0
|
|
C2D
|
A:HEM301
|
4.2
|
49.0
|
1.0
|
|
C3D
|
A:HEM301
|
4.2
|
49.0
|
1.0
|
|
C3B
|
A:HEM301
|
4.3
|
49.0
|
1.0
|
|
C2B
|
A:HEM301
|
4.3
|
49.0
|
1.0
|
|
C3A
|
A:HEM301
|
4.3
|
49.0
|
1.0
|
|
C2A
|
A:HEM301
|
4.4
|
49.0
|
1.0
|
|
CG
|
A:HIS86
|
4.4
|
8.2
|
1.0
|
|
C3C
|
A:HEM301
|
4.4
|
49.0
|
1.0
|
|
C2C
|
A:HEM301
|
4.4
|
49.0
|
1.0
|
|
CG
|
A:GLN47
|
4.9
|
13.6
|
1.0
|
|
CA
|
A:GLY51
|
5.0
|
17.0
|
1.0
|
|
CA
|
A:GLY135
|
5.0
|
62.7
|
1.0
|
|
Iron binding site 2 out
of 12 in 2d2c
Go back to
Iron Binding Sites List in 2d2c
Iron binding site 2 out
of 12 in the Crystal Structure of Cytochrome B6F Complex with Dbmib From M. Laminosus
 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 Cytochrome B6F Complex with Dbmib From M. Laminosus within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe302
b:41.8
occ:1.00
|
FE
|
A:HEM302
|
0.0
|
41.8
|
1.0
|
|
NA
|
A:HEM302
|
2.0
|
58.1
|
1.0
|
|
ND
|
A:HEM302
|
2.0
|
58.1
|
1.0
|
|
NB
|
A:HEM302
|
2.1
|
58.1
|
1.0
|
|
NC
|
A:HEM302
|
2.1
|
58.1
|
1.0
|
|
NE2
|
A:HIS202
|
2.1
|
34.9
|
1.0
|
|
NE2
|
A:HIS100
|
2.3
|
88.7
|
1.0
|
|
CE1
|
A:HIS202
|
2.4
|
34.9
|
1.0
|
|
C4A
|
A:HEM302
|
3.0
|
58.1
|
1.0
|
|
C4D
|
A:HEM302
|
3.0
|
58.1
|
1.0
|
|
C1D
|
A:HEM302
|
3.0
|
58.1
|
1.0
|
|
C1A
|
A:HEM302
|
3.0
|
58.1
|
1.0
|
|
C1B
|
A:HEM302
|
3.1
|
58.1
|
1.0
|
|
C4C
|
A:HEM302
|
3.1
|
58.1
|
1.0
|
|
CD2
|
A:HIS100
|
3.1
|
88.7
|
1.0
|
|
C1C
|
A:HEM302
|
3.1
|
58.1
|
1.0
|
|
C4B
|
A:HEM302
|
3.1
|
58.1
|
1.0
|
|
CD2
|
A:HIS202
|
3.3
|
34.9
|
1.0
|
|
CHA
|
A:HEM302
|
3.4
|
58.1
|
1.0
|
|
CHB
|
A:HEM302
|
3.4
|
58.1
|
1.0
|
|
CHD
|
A:HEM302
|
3.4
|
58.1
|
1.0
|
|
CE1
|
A:HIS100
|
3.5
|
88.7
|
1.0
|
|
CHC
|
A:HEM302
|
3.5
|
58.1
|
1.0
|
|
ND1
|
A:HIS202
|
3.6
|
34.9
|
1.0
|
|
CG
|
A:HIS202
|
4.1
|
34.9
|
1.0
|
|
C2D
|
A:HEM302
|
4.2
|
58.1
|
1.0
|
|
C3A
|
A:HEM302
|
4.2
|
58.1
|
1.0
|
|
C2A
|
A:HEM302
|
4.3
|
58.1
|
1.0
|
|
C3D
|
A:HEM302
|
4.3
|
58.1
|
1.0
|
|
C2B
|
A:HEM302
|
4.3
|
58.1
|
1.0
|
|
C3B
|
A:HEM302
|
4.3
|
58.1
|
1.0
|
|
CG
|
A:HIS100
|
4.3
|
88.7
|
1.0
|
|
C3C
|
A:HEM302
|
4.4
|
58.1
|
1.0
|
|
C2C
|
A:HEM302
|
4.4
|
58.1
|
1.0
|
|
ND1
|
A:HIS100
|
4.5
|
88.7
|
1.0
|
|
O
|
A:THR117
|
4.6
|
52.6
|
1.0
|
|
CA
|
A:GLY121
|
4.9
|
54.5
|
1.0
|
|
CD1
|
A:LEU124
|
5.0
|
60.7
|
1.0
|
|
Iron binding site 3 out
of 12 in 2d2c
Go back to
Iron Binding Sites List in 2d2c
Iron binding site 3 out
of 12 in the Crystal Structure of Cytochrome B6F Complex with Dbmib From M. Laminosus
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 3 of Crystal Structure of Cytochrome B6F Complex with Dbmib From M. Laminosus within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe303
b:57.7
occ:1.00
|
FE
|
A:HEC303
|
0.0
|
57.7
|
1.0
|
|
NB
|
A:HEC303
|
2.0
|
0.6
|
1.0
|
|
NA
|
A:HEC303
|
2.0
|
0.6
|
1.0
|
|
NC
|
A:HEC303
|
2.0
|
0.6
|
1.0
|
|
ND
|
A:HEC303
|
2.1
|
0.6
|
1.0
|
|
O
|
A:HOH304
|
2.5
|
64.1
|
1.0
|
|
C4A
|
A:HEC303
|
3.0
|
0.6
|
1.0
|
|
C4B
|
A:HEC303
|
3.1
|
0.6
|
1.0
|
|
C1B
|
A:HEC303
|
3.1
|
0.6
|
1.0
|
|
C4C
|
A:HEC303
|
3.1
|
0.6
|
1.0
|
|
C1C
|
A:HEC303
|
3.1
|
0.6
|
1.0
|
|
C1A
|
A:HEC303
|
3.1
|
0.6
|
1.0
|
|
C1D
|
A:HEC303
|
3.1
|
0.6
|
1.0
|
|
C4D
|
A:HEC303
|
3.1
|
0.6
|
1.0
|
|
CE2
|
B:PHE40
|
3.2
|
64.3
|
1.0
|
|
CHB
|
A:HEC303
|
3.4
|
0.6
|
1.0
|
|
CHD
|
A:HEC303
|
3.4
|
0.6
|
1.0
|
|
CHC
|
A:HEC303
|
3.4
|
0.6
|
1.0
|
|
CHA
|
A:HEC303
|
3.5
|
0.6
|
1.0
|
|
O2A
|
A:HEM302
|
3.5
|
58.1
|
1.0
|
|
CZ
|
B:PHE40
|
3.6
|
64.3
|
1.0
|
|
CD2
|
B:PHE40
|
4.1
|
64.3
|
1.0
|
|
C2B
|
A:HEC303
|
4.3
|
0.6
|
1.0
|
|
C3B
|
A:HEC303
|
4.3
|
0.6
|
1.0
|
|
C2C
|
A:HEC303
|
4.3
|
0.6
|
1.0
|
|
C3C
|
A:HEC303
|
4.3
|
0.6
|
1.0
|
|
C3A
|
A:HEC303
|
4.3
|
0.6
|
1.0
|
|
C2A
|
A:HEC303
|
4.3
|
0.6
|
1.0
|
|
C2D
|
A:HEC303
|
4.4
|
0.6
|
1.0
|
|
C3D
|
A:HEC303
|
4.4
|
0.6
|
1.0
|
|
CGA
|
A:HEM302
|
4.5
|
58.1
|
1.0
|
|
CE1
|
B:PHE40
|
4.7
|
64.3
|
1.0
|
|
CA
|
A:GLY38
|
4.7
|
43.2
|
1.0
|
|
Iron binding site 4 out
of 12 in 2d2c
Go back to
Iron Binding Sites List in 2d2c
Iron binding site 4 out
of 12 in the Crystal Structure of Cytochrome B6F Complex with Dbmib From M. Laminosus
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 4 of Crystal Structure of Cytochrome B6F Complex with Dbmib From M. Laminosus within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Fe301
b:36.6
occ:1.00
|
FE
|
C:HEM301
|
0.0
|
36.6
|
1.0
|
|
NA
|
C:HEM301
|
2.0
|
59.9
|
1.0
|
|
ND
|
C:HEM301
|
2.0
|
59.9
|
1.0
|
|
NB
|
C:HEM301
|
2.1
|
59.9
|
1.0
|
|
NC
|
C:HEM301
|
2.1
|
59.9
|
1.0
|
|
N
|
C:TYR1
|
2.3
|
37.0
|
1.0
|
|
C4D
|
C:HEM301
|
3.0
|
59.9
|
1.0
|
|
C1A
|
C:HEM301
|
3.0
|
59.9
|
1.0
|
|
C4A
|
C:HEM301
|
3.0
|
59.9
|
1.0
|
|
C1D
|
C:HEM301
|
3.1
|
59.9
|
1.0
|
|
C1B
|
C:HEM301
|
3.1
|
59.9
|
1.0
|
|
C4B
|
C:HEM301
|
3.1
|
59.9
|
1.0
|
|
C4C
|
C:HEM301
|
3.1
|
59.9
|
1.0
|
|
C1C
|
C:HEM301
|
3.1
|
59.9
|
1.0
|
|
CA
|
C:TYR1
|
3.2
|
37.0
|
1.0
|
|
CHA
|
C:HEM301
|
3.4
|
59.9
|
1.0
|
|
CHB
|
C:HEM301
|
3.4
|
59.9
|
1.0
|
|
CHD
|
C:HEM301
|
3.5
|
59.9
|
1.0
|
|
CHC
|
C:HEM301
|
3.5
|
59.9
|
1.0
|
|
CD2
|
C:HIS26
|
3.6
|
77.5
|
1.0
|
|
CB
|
C:HIS26
|
3.8
|
77.5
|
1.0
|
|
C
|
C:TYR1
|
3.9
|
37.0
|
1.0
|
|
CG
|
C:HIS26
|
4.0
|
77.5
|
1.0
|
|
O
|
C:TYR1
|
4.2
|
37.0
|
1.0
|
|
C2D
|
C:HEM301
|
4.3
|
59.9
|
1.0
|
|
C3D
|
C:HEM301
|
4.3
|
59.9
|
1.0
|
|
C3A
|
C:HEM301
|
4.3
|
59.9
|
1.0
|
|
C2B
|
C:HEM301
|
4.3
|
59.9
|
1.0
|
|
C2A
|
C:HEM301
|
4.3
|
59.9
|
1.0
|
|
C3B
|
C:HEM301
|
4.3
|
59.9
|
1.0
|
|
C3C
|
C:HEM301
|
4.4
|
59.9
|
1.0
|
|
C2C
|
C:HEM301
|
4.5
|
59.9
|
1.0
|
|
CB
|
C:TYR1
|
4.5
|
0.8
|
1.0
|
|
ND2
|
C:ASN154
|
4.6
|
69.0
|
1.0
|
|
OD1
|
C:ASN154
|
4.6
|
69.0
|
1.0
|
|
CD1
|
C:TYR1
|
4.6
|
0.8
|
1.0
|
|
CG
|
C:ASN154
|
4.6
|
69.0
|
1.0
|
|
CG
|
C:TYR1
|
4.8
|
0.8
|
1.0
|
|
NE2
|
C:HIS26
|
4.8
|
77.5
|
1.0
|
|
N
|
C:PRO2
|
4.9
|
81.6
|
1.0
|
|
CD1
|
C:TRP4
|
5.0
|
0.2
|
1.0
|
|
Iron binding site 5 out
of 12 in 2d2c
Go back to
Iron Binding Sites List in 2d2c
Iron binding site 5 out
of 12 in the Crystal Structure of Cytochrome B6F Complex with Dbmib From M. Laminosus
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 5 of Crystal Structure of Cytochrome B6F Complex with Dbmib From M. Laminosus within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Fe201
b:70.2
occ:1.00
|
FE1
|
D:FES201
|
0.0
|
70.2
|
1.0
|
|
S1
|
D:FES201
|
2.2
|
97.3
|
1.0
|
|
S2
|
D:FES201
|
2.2
|
97.3
|
1.0
|
|
SG
|
D:CYS108
|
2.4
|
62.3
|
1.0
|
|
SG
|
D:CYS126
|
2.5
|
40.9
|
1.0
|
|
FE2
|
D:FES201
|
2.7
|
70.2
|
1.0
|
|
CB
|
D:CYS126
|
3.0
|
40.9
|
1.0
|
|
CB
|
D:CYS108
|
3.5
|
62.3
|
1.0
|
|
CG2
|
D:VAL115
|
3.8
|
64.7
|
1.0
|
|
OG
|
D:SER131
|
4.0
|
41.9
|
1.0
|
|
CB
|
D:CYS113
|
4.0
|
67.2
|
1.0
|
|
ND1
|
D:HIS110
|
4.0
|
0.0
|
1.0
|
|
CB
|
D:SER131
|
4.2
|
41.9
|
1.0
|
|
O
|
D:CYS113
|
4.2
|
0.2
|
1.0
|
|
CB
|
D:HIS110
|
4.4
|
0.0
|
1.0
|
|
ND1
|
D:HIS129
|
4.4
|
0.3
|
1.0
|
|
SG
|
D:CYS113
|
4.5
|
67.2
|
1.0
|
|
CA
|
D:CYS126
|
4.5
|
50.7
|
1.0
|
|
CG
|
D:HIS110
|
4.5
|
0.0
|
1.0
|
|
CA
|
D:CYS113
|
4.9
|
0.2
|
1.0
|
|
CA
|
D:CYS108
|
4.9
|
0.7
|
1.0
|
|
N
|
D:CYS113
|
4.9
|
0.2
|
1.0
|
|
CE1
|
D:HIS110
|
4.9
|
0.0
|
1.0
|
|
N
|
D:LEU111
|
5.0
|
0.9
|
1.0
|
|
C
|
D:CYS113
|
5.0
|
0.2
|
1.0
|
|
Iron binding site 6 out
of 12 in 2d2c
Go back to
Iron Binding Sites List in 2d2c
Iron binding site 6 out
of 12 in the Crystal Structure of Cytochrome B6F Complex with Dbmib From M. Laminosus
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 6 of Crystal Structure of Cytochrome B6F Complex with Dbmib From M. Laminosus within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Fe201
b:70.2
occ:1.00
|
FE2
|
D:FES201
|
0.0
|
70.2
|
1.0
|
|
S1
|
D:FES201
|
2.2
|
97.3
|
1.0
|
|
S2
|
D:FES201
|
2.2
|
97.3
|
1.0
|
|
ND1
|
D:HIS129
|
2.3
|
0.3
|
1.0
|
|
ND1
|
D:HIS110
|
2.6
|
0.0
|
1.0
|
|
FE1
|
D:FES201
|
2.7
|
70.2
|
1.0
|
|
CE1
|
D:HIS110
|
2.8
|
0.0
|
1.0
|
|
CG
|
D:HIS129
|
2.9
|
0.3
|
1.0
|
|
CE1
|
D:HIS129
|
3.1
|
0.3
|
1.0
|
|
CB
|
D:HIS129
|
3.3
|
0.3
|
1.0
|
|
CG
|
D:HIS110
|
3.6
|
0.0
|
1.0
|
|
NE2
|
D:HIS110
|
3.7
|
0.0
|
1.0
|
|
CD2
|
D:HIS129
|
3.8
|
0.3
|
1.0
|
|
NE2
|
D:HIS129
|
3.9
|
0.3
|
1.0
|
|
CG
|
D:PRO143
|
4.0
|
87.6
|
1.0
|
|
SG
|
D:CYS126
|
4.1
|
40.9
|
1.0
|
|
CD2
|
D:HIS110
|
4.1
|
0.0
|
1.0
|
|
N
|
D:HIS129
|
4.1
|
67.5
|
1.0
|
|
CB
|
D:LEU111
|
4.3
|
0.9
|
1.0
|
|
CA
|
D:HIS129
|
4.3
|
67.5
|
1.0
|
|
CB
|
D:HIS110
|
4.3
|
0.0
|
1.0
|
|
SG
|
D:CYS108
|
4.4
|
62.3
|
1.0
|
|
CB
|
D:CYS128
|
4.5
|
63.8
|
1.0
|
|
SG
|
D:CYS113
|
4.5
|
67.2
|
1.0
|
|
OG
|
D:SER131
|
4.7
|
41.9
|
1.0
|
|
CD2
|
D:LEU111
|
4.7
|
0.9
|
1.0
|
|
C
|
D:CYS128
|
4.7
|
80.5
|
1.0
|
|
N
|
D:LEU111
|
4.8
|
0.9
|
1.0
|
|
CB
|
D:CYS126
|
4.9
|
40.9
|
1.0
|
|
Iron binding site 7 out
of 12 in 2d2c
Go back to
Iron Binding Sites List in 2d2c
Iron binding site 7 out
of 12 in the Crystal Structure of Cytochrome B6F Complex with Dbmib From M. Laminosus
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 7 of Crystal Structure of Cytochrome B6F Complex with Dbmib From M. Laminosus within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
N:Fe301
b:26.9
occ:1.00
|
FE
|
N:HEM301
|
0.0
|
26.9
|
1.0
|
|
NE2
|
N:HIS187
|
2.0
|
14.8
|
1.0
|
|
NB
|
N:HEM301
|
2.0
|
65.0
|
1.0
|
|
ND
|
N:HEM301
|
2.0
|
65.0
|
1.0
|
|
NA
|
N:HEM301
|
2.0
|
65.0
|
1.0
|
|
NC
|
N:HEM301
|
2.1
|
65.0
|
1.0
|
|
NE2
|
N:HIS86
|
2.3
|
66.2
|
1.0
|
|
CE1
|
N:HIS187
|
2.7
|
14.8
|
1.0
|
|
CE1
|
N:HIS86
|
2.8
|
66.2
|
1.0
|
|
C4D
|
N:HEM301
|
3.0
|
65.0
|
1.0
|
|
C1B
|
N:HEM301
|
3.0
|
65.0
|
1.0
|
|
C4B
|
N:HEM301
|
3.0
|
65.0
|
1.0
|
|
C4A
|
N:HEM301
|
3.0
|
65.0
|
1.0
|
|
C1D
|
N:HEM301
|
3.0
|
65.0
|
1.0
|
|
C4C
|
N:HEM301
|
3.1
|
65.0
|
1.0
|
|
C1C
|
N:HEM301
|
3.1
|
65.0
|
1.0
|
|
CD2
|
N:HIS187
|
3.1
|
14.8
|
1.0
|
|
C1A
|
N:HEM301
|
3.1
|
65.0
|
1.0
|
|
CHB
|
N:HEM301
|
3.4
|
65.0
|
1.0
|
|
CHA
|
N:HEM301
|
3.4
|
65.0
|
1.0
|
|
CHC
|
N:HEM301
|
3.4
|
65.0
|
1.0
|
|
CHD
|
N:HEM301
|
3.4
|
65.0
|
1.0
|
|
CD2
|
N:HIS86
|
3.5
|
66.2
|
1.0
|
|
ND1
|
N:HIS187
|
3.9
|
14.8
|
1.0
|
|
CG
|
N:HIS187
|
4.1
|
14.8
|
1.0
|
|
ND1
|
N:HIS86
|
4.1
|
66.2
|
1.0
|
|
C2B
|
N:HEM301
|
4.2
|
65.0
|
1.0
|
|
C3B
|
N:HEM301
|
4.3
|
65.0
|
1.0
|
|
C2D
|
N:HEM301
|
4.3
|
65.0
|
1.0
|
|
C3D
|
N:HEM301
|
4.3
|
65.0
|
1.0
|
|
C3A
|
N:HEM301
|
4.3
|
65.0
|
1.0
|
|
C2A
|
N:HEM301
|
4.4
|
65.0
|
1.0
|
|
C3C
|
N:HEM301
|
4.4
|
65.0
|
1.0
|
|
C2C
|
N:HEM301
|
4.4
|
65.0
|
1.0
|
|
CG
|
N:HIS86
|
4.4
|
66.2
|
1.0
|
|
CA
|
N:GLY51
|
4.8
|
49.5
|
1.0
|
|
CA
|
N:GLY135
|
4.9
|
58.0
|
1.0
|
|
Iron binding site 8 out
of 12 in 2d2c
Go back to
Iron Binding Sites List in 2d2c
Iron binding site 8 out
of 12 in the Crystal Structure of Cytochrome B6F Complex with Dbmib From M. Laminosus
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 8 of Crystal Structure of Cytochrome B6F Complex with Dbmib From M. Laminosus within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
N:Fe302
b:30.1
occ:1.00
|
FE
|
N:HEM302
|
0.0
|
30.1
|
1.0
|
|
NE2
|
N:HIS100
|
2.0
|
38.4
|
1.0
|
|
NA
|
N:HEM302
|
2.0
|
61.8
|
1.0
|
|
NC
|
N:HEM302
|
2.0
|
61.8
|
1.0
|
|
ND
|
N:HEM302
|
2.0
|
61.8
|
1.0
|
|
NB
|
N:HEM302
|
2.1
|
61.8
|
1.0
|
|
NE2
|
N:HIS202
|
2.4
|
56.9
|
1.0
|
|
CD2
|
N:HIS100
|
2.7
|
38.4
|
1.0
|
|
CE1
|
N:HIS202
|
2.9
|
56.9
|
1.0
|
|
C1D
|
N:HEM302
|
3.0
|
61.8
|
1.0
|
|
C4C
|
N:HEM302
|
3.0
|
61.8
|
1.0
|
|
C1A
|
N:HEM302
|
3.0
|
61.8
|
1.0
|
|
C4D
|
N:HEM302
|
3.0
|
61.8
|
1.0
|
|
C4A
|
N:HEM302
|
3.0
|
61.8
|
1.0
|
|
C1C
|
N:HEM302
|
3.1
|
61.8
|
1.0
|
|
C1B
|
N:HEM302
|
3.1
|
61.8
|
1.0
|
|
C4B
|
N:HEM302
|
3.1
|
61.8
|
1.0
|
|
CE1
|
N:HIS100
|
3.1
|
38.4
|
1.0
|
|
CHD
|
N:HEM302
|
3.4
|
61.8
|
1.0
|
|
CHA
|
N:HEM302
|
3.4
|
61.8
|
1.0
|
|
CHC
|
N:HEM302
|
3.4
|
61.8
|
1.0
|
|
CHB
|
N:HEM302
|
3.4
|
61.8
|
1.0
|
|
CD2
|
N:HIS202
|
3.5
|
56.9
|
1.0
|
|
CG
|
N:HIS100
|
3.9
|
38.4
|
1.0
|
|
ND1
|
N:HIS202
|
4.0
|
56.9
|
1.0
|
|
ND1
|
N:HIS100
|
4.1
|
38.4
|
1.0
|
|
C2D
|
N:HEM302
|
4.3
|
61.8
|
1.0
|
|
C2A
|
N:HEM302
|
4.3
|
61.8
|
1.0
|
|
C3A
|
N:HEM302
|
4.3
|
61.8
|
1.0
|
|
CG
|
N:HIS202
|
4.3
|
56.9
|
1.0
|
|
C2B
|
N:HEM302
|
4.3
|
61.8
|
1.0
|
|
C3B
|
N:HEM302
|
4.3
|
61.8
|
1.0
|
|
C3D
|
N:HEM302
|
4.3
|
61.8
|
1.0
|
|
C3C
|
N:HEM302
|
4.3
|
61.8
|
1.0
|
|
C2C
|
N:HEM302
|
4.4
|
61.8
|
1.0
|
|
CA
|
N:GLY37
|
4.9
|
51.6
|
1.0
|
|
Iron binding site 9 out
of 12 in 2d2c
Go back to
Iron Binding Sites List in 2d2c
Iron binding site 9 out
of 12 in the Crystal Structure of Cytochrome B6F Complex with Dbmib From M. Laminosus
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 9 of Crystal Structure of Cytochrome B6F Complex with Dbmib From M. Laminosus within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
N:Fe303
b:67.6
occ:1.00
|
FE
|
N:HEC303
|
0.0
|
67.6
|
1.0
|
|
NA
|
N:HEC303
|
2.0
|
75.0
|
1.0
|
|
NB
|
N:HEC303
|
2.0
|
75.0
|
1.0
|
|
NC
|
N:HEC303
|
2.0
|
75.0
|
1.0
|
|
ND
|
N:HEC303
|
2.0
|
75.0
|
1.0
|
|
O
|
N:HOH1306
|
2.1
|
64.1
|
1.0
|
|
C1A
|
N:HEC303
|
3.0
|
75.0
|
1.0
|
|
C4B
|
N:HEC303
|
3.0
|
75.0
|
1.0
|
|
C1C
|
N:HEC303
|
3.0
|
75.0
|
1.0
|
|
C4A
|
N:HEC303
|
3.0
|
75.0
|
1.0
|
|
C4D
|
N:HEC303
|
3.0
|
75.0
|
1.0
|
|
C1B
|
N:HEC303
|
3.1
|
75.0
|
1.0
|
|
C4C
|
N:HEC303
|
3.1
|
75.0
|
1.0
|
|
C1D
|
N:HEC303
|
3.1
|
75.0
|
1.0
|
|
CHA
|
N:HEC303
|
3.4
|
75.0
|
1.0
|
|
CHB
|
N:HEC303
|
3.4
|
75.0
|
1.0
|
|
CHC
|
N:HEC303
|
3.4
|
75.0
|
1.0
|
|
CHD
|
N:HEC303
|
3.4
|
75.0
|
1.0
|
|
O1A
|
N:HEM302
|
3.6
|
61.8
|
1.0
|
|
CA
|
N:GLY38
|
3.8
|
36.7
|
1.0
|
|
CE2
|
O:PHE40
|
3.9
|
0.5
|
1.0
|
|
N
|
N:GLY38
|
4.1
|
36.7
|
1.0
|
|
CZ
|
O:PHE40
|
4.2
|
0.5
|
1.0
|
|
C2C
|
N:HEC303
|
4.3
|
75.0
|
1.0
|
|
C2B
|
N:HEC303
|
4.3
|
75.0
|
1.0
|
|
C3C
|
N:HEC303
|
4.3
|
75.0
|
1.0
|
|
C3B
|
N:HEC303
|
4.3
|
75.0
|
1.0
|
|
C2A
|
N:HEC303
|
4.3
|
75.0
|
1.0
|
|
C3A
|
N:HEC303
|
4.3
|
75.0
|
1.0
|
|
C2D
|
N:HEC303
|
4.3
|
75.0
|
1.0
|
|
C3D
|
N:HEC303
|
4.4
|
75.0
|
1.0
|
|
CGA
|
N:HEM302
|
4.4
|
61.8
|
1.0
|
|
CMA
|
N:HEM302
|
4.6
|
61.8
|
1.0
|
|
CBA
|
N:HEM302
|
4.6
|
61.8
|
1.0
|
|
CD2
|
O:PHE40
|
4.8
|
0.5
|
1.0
|
|
CAA
|
N:HEM302
|
4.9
|
61.8
|
1.0
|
|
O
|
N:CYS35
|
4.9
|
76.4
|
1.0
|
|
Iron binding site 10 out
of 12 in 2d2c
Go back to
Iron Binding Sites List in 2d2c
Iron binding site 10 out
of 12 in the Crystal Structure of Cytochrome B6F Complex with Dbmib From M. Laminosus
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 10 of Crystal Structure of Cytochrome B6F Complex with Dbmib From M. Laminosus within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
P:Fe301
b:54.1
occ:1.00
|
FE
|
P:HEM301
|
0.0
|
54.1
|
1.0
|
|
ND
|
P:HEM301
|
2.0
|
76.5
|
1.0
|
|
NC
|
P:HEM301
|
2.0
|
76.5
|
1.0
|
|
NB
|
P:HEM301
|
2.1
|
76.5
|
1.0
|
|
NA
|
P:HEM301
|
2.1
|
76.5
|
1.0
|
|
N
|
P:TYR1
|
2.3
|
20.1
|
1.0
|
|
C1D
|
P:HEM301
|
3.0
|
76.5
|
1.0
|
|
C4D
|
P:HEM301
|
3.0
|
76.5
|
1.0
|
|
C4C
|
P:HEM301
|
3.0
|
76.5
|
1.0
|
|
C1C
|
P:HEM301
|
3.1
|
76.5
|
1.0
|
|
C4B
|
P:HEM301
|
3.1
|
76.5
|
1.0
|
|
C1B
|
P:HEM301
|
3.1
|
76.5
|
1.0
|
|
C1A
|
P:HEM301
|
3.1
|
76.5
|
1.0
|
|
C4A
|
P:HEM301
|
3.1
|
76.5
|
1.0
|
|
CA
|
P:TYR1
|
3.1
|
20.1
|
1.0
|
|
CHD
|
P:HEM301
|
3.4
|
76.5
|
1.0
|
|
CHA
|
P:HEM301
|
3.4
|
76.5
|
1.0
|
|
CHC
|
P:HEM301
|
3.4
|
76.5
|
1.0
|
|
CHB
|
P:HEM301
|
3.5
|
76.5
|
1.0
|
|
CD2
|
P:HIS26
|
3.8
|
73.7
|
1.0
|
|
CB
|
P:HIS26
|
3.9
|
73.7
|
1.0
|
|
C
|
P:TYR1
|
3.9
|
20.1
|
1.0
|
|
O
|
P:TYR1
|
4.1
|
20.1
|
1.0
|
|
CG
|
P:HIS26
|
4.1
|
73.7
|
1.0
|
|
C2D
|
P:HEM301
|
4.3
|
76.5
|
1.0
|
|
C3D
|
P:HEM301
|
4.3
|
76.5
|
1.0
|
|
C3B
|
P:HEM301
|
4.3
|
76.5
|
1.0
|
|
C2B
|
P:HEM301
|
4.3
|
76.5
|
1.0
|
|
C3C
|
P:HEM301
|
4.4
|
76.5
|
1.0
|
|
C2C
|
P:HEM301
|
4.4
|
76.5
|
1.0
|
|
C3A
|
P:HEM301
|
4.4
|
76.5
|
1.0
|
|
C2A
|
P:HEM301
|
4.4
|
76.5
|
1.0
|
|
CB
|
P:TYR1
|
4.5
|
0.9
|
1.0
|
|
CD1
|
P:TYR1
|
4.6
|
0.9
|
1.0
|
|
ND2
|
P:ASN154
|
4.7
|
30.8
|
1.0
|
|
OD1
|
P:ASN154
|
4.7
|
30.8
|
1.0
|
|
CG
|
P:TYR1
|
4.7
|
0.9
|
1.0
|
|
CG
|
P:ASN154
|
4.8
|
30.8
|
1.0
|
|
N
|
P:PRO2
|
4.8
|
83.8
|
1.0
|
|
CD1
|
P:TRP4
|
4.8
|
1.0
|
1.0
|
|
NE2
|
P:HIS26
|
4.9
|
73.7
|
1.0
|
|
Reference:
J.Yan,
G.Kurisu,
W.A.Cramer.
Intraprotein Transfer of the Quinone Analogue Inhibitor 2,5-Dibromo-3-Methyl-6-Isopropyl-P-Benzoquinone in the Cytochrome B6F Complex Proc.Natl.Acad.Sci.Usa V. 103 69 2006.
ISSN: ISSN 0027-8424
PubMed: 16371475
DOI: 10.1073/PNAS.0504909102
Page generated: Thu Jul 17 00:35:18 2025
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