Iron in PDB 7fd1: 7-Fe Ferredoxin From Azotobacter Vinelandii at pH 8.5, 100 K, 1.35 A
Protein crystallography data
The structure of 7-Fe Ferredoxin From Azotobacter Vinelandii at pH 8.5, 100 K, 1.35 A, PDB code: 7fd1
was solved by
C.D.Stout,
E.A.Stura,
D.E.Mcree,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
|
Resolution Low / High (Å)
|
100.00 /
1.30
|
|
Space group
|
P 41 21 2
|
|
Cell size a, b, c (Å), α, β, γ (°)
|
54.460,
54.460,
92.650,
90.00,
90.00,
90.00
|
|
R / Rfree (%)
|
15.8 /
n/a
|
Iron Binding Sites:
The binding sites of Iron atom in the 7-Fe Ferredoxin From Azotobacter Vinelandii at pH 8.5, 100 K, 1.35 A
(pdb code 7fd1). This binding sites where shown within
5.0 Angstroms radius around Iron atom.
In total 7 binding sites of Iron where determined in the
7-Fe Ferredoxin From Azotobacter Vinelandii at pH 8.5, 100 K, 1.35 A, PDB code: 7fd1:
Jump to Iron binding site number:
1;
2;
3;
4;
5;
6;
7;
Iron binding site 1 out
of 7 in 7fd1
Go back to
Iron Binding Sites List in 7fd1
Iron binding site 1 out
of 7 in the 7-Fe Ferredoxin From Azotobacter Vinelandii at pH 8.5, 100 K, 1.35 A
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 1 of 7-Fe Ferredoxin From Azotobacter Vinelandii at pH 8.5, 100 K, 1.35 A within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe107
b:10.6
occ:1.00
|
FE1
|
A:SF4107
|
0.0
|
10.6
|
1.0
|
|
S3
|
A:SF4107
|
2.2
|
10.2
|
1.0
|
|
S2
|
A:SF4107
|
2.3
|
9.9
|
1.0
|
|
S4
|
A:SF4107
|
2.3
|
11.0
|
1.0
|
|
SG
|
A:CYS20
|
2.3
|
10.7
|
1.0
|
|
FE3
|
A:SF4107
|
2.7
|
9.9
|
1.0
|
|
FE2
|
A:SF4107
|
2.7
|
10.1
|
1.0
|
|
FE4
|
A:SF4107
|
2.7
|
10.0
|
1.0
|
|
HB2
|
A:CYS20
|
3.3
|
14.5
|
1.0
|
|
CB
|
A:CYS20
|
3.3
|
12.1
|
1.0
|
|
HD2
|
A:PRO21
|
3.4
|
13.9
|
1.0
|
|
HA
|
A:CYS20
|
3.4
|
11.6
|
1.0
|
|
SG
|
A:CYS24
|
3.5
|
12.0
|
1.0
|
|
HE2
|
A:PHE25
|
3.5
|
11.8
|
1.0
|
|
HG23
|
A:VAL22
|
3.9
|
21.2
|
1.0
|
|
S1
|
A:SF4107
|
3.9
|
9.9
|
1.0
|
|
CA
|
A:CYS20
|
3.9
|
9.6
|
1.0
|
|
CE2
|
A:PHE25
|
4.1
|
9.8
|
1.0
|
|
HB3
|
A:CYS20
|
4.2
|
14.5
|
1.0
|
|
HG21
|
A:VAL22
|
4.3
|
21.2
|
1.0
|
|
CD
|
A:PRO21
|
4.3
|
11.6
|
1.0
|
|
H
|
A:CYS24
|
4.3
|
12.4
|
1.0
|
|
H
|
A:VAL22
|
4.3
|
14.6
|
1.0
|
|
HA
|
A:CYS39
|
4.4
|
12.2
|
1.0
|
|
HB3
|
A:CYS45
|
4.5
|
13.4
|
1.0
|
|
CG2
|
A:VAL22
|
4.5
|
14.1
|
1.0
|
|
SG
|
A:CYS42
|
4.6
|
10.8
|
1.0
|
|
C
|
A:CYS20
|
4.6
|
10.7
|
1.0
|
|
HD2
|
A:PHE25
|
4.6
|
11.4
|
1.0
|
|
HD3
|
A:PRO21
|
4.7
|
13.9
|
1.0
|
|
N
|
A:PRO21
|
4.7
|
10.7
|
1.0
|
|
H
|
A:ILE40
|
4.8
|
11.6
|
1.0
|
|
CD2
|
A:PHE25
|
4.8
|
9.5
|
1.0
|
|
SG
|
A:CYS45
|
4.8
|
10.3
|
1.0
|
|
HB2
|
A:CYS39
|
4.8
|
12.5
|
1.0
|
|
HG22
|
A:VAL22
|
4.8
|
21.2
|
1.0
|
|
CZ
|
A:PHE25
|
4.9
|
8.6
|
1.0
|
|
HZ
|
A:PHE25
|
4.9
|
10.3
|
1.0
|
|
SG
|
A:CYS39
|
4.9
|
10.3
|
1.0
|
|
HG2
|
A:PRO21
|
5.0
|
16.5
|
1.0
|
|
Iron binding site 2 out
of 7 in 7fd1
Go back to
Iron Binding Sites List in 7fd1
Iron binding site 2 out
of 7 in the 7-Fe Ferredoxin From Azotobacter Vinelandii at pH 8.5, 100 K, 1.35 A
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 2 of 7-Fe Ferredoxin From Azotobacter Vinelandii at pH 8.5, 100 K, 1.35 A within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe107
b:10.1
occ:1.00
|
FE2
|
A:SF4107
|
0.0
|
10.1
|
1.0
|
|
S3
|
A:SF4107
|
2.3
|
10.2
|
1.0
|
|
S4
|
A:SF4107
|
2.3
|
11.0
|
1.0
|
|
SG
|
A:CYS39
|
2.3
|
10.3
|
1.0
|
|
S1
|
A:SF4107
|
2.3
|
9.9
|
1.0
|
|
FE1
|
A:SF4107
|
2.7
|
10.6
|
1.0
|
|
FE4
|
A:SF4107
|
2.7
|
10.0
|
1.0
|
|
FE3
|
A:SF4107
|
2.7
|
9.9
|
1.0
|
|
HB2
|
A:CYS39
|
3.2
|
12.5
|
1.0
|
|
CB
|
A:CYS39
|
3.2
|
10.4
|
1.0
|
|
HA
|
A:CYS39
|
3.3
|
12.2
|
1.0
|
|
H
|
A:ASP41
|
3.4
|
12.8
|
1.0
|
|
H
|
A:ILE40
|
3.5
|
11.6
|
1.0
|
|
HB2
|
A:PHE2
|
3.7
|
11.5
|
1.0
|
|
CA
|
A:CYS39
|
3.7
|
10.2
|
1.0
|
|
S2
|
A:SF4107
|
3.9
|
9.9
|
1.0
|
|
SG
|
A:CYS24
|
3.9
|
12.0
|
1.0
|
|
H
|
A:CYS42
|
3.9
|
15.4
|
1.0
|
|
HG23
|
A:ILE34
|
4.0
|
17.8
|
1.0
|
|
N
|
A:ILE40
|
4.0
|
9.7
|
1.0
|
|
HB3
|
A:CYS39
|
4.1
|
12.5
|
1.0
|
|
N
|
A:ASP41
|
4.1
|
10.7
|
1.0
|
|
H
|
A:PHE2
|
4.1
|
14.8
|
1.0
|
|
HA
|
A:ASP41
|
4.1
|
12.8
|
1.0
|
|
HG22
|
A:ILE34
|
4.1
|
17.8
|
1.0
|
|
HD12
|
A:ILE34
|
4.3
|
12.7
|
1.0
|
|
C
|
A:CYS39
|
4.3
|
13.5
|
1.0
|
|
HD1
|
A:PHE2
|
4.4
|
15.1
|
1.0
|
|
H
|
A:ALA43
|
4.5
|
12.8
|
1.0
|
|
CG2
|
A:ILE34
|
4.5
|
11.8
|
1.0
|
|
CA
|
A:ASP41
|
4.6
|
10.7
|
1.0
|
|
CB
|
A:PHE2
|
4.6
|
9.6
|
1.0
|
|
N
|
A:CYS42
|
4.6
|
12.8
|
1.0
|
|
SG
|
A:CYS45
|
4.8
|
10.3
|
1.0
|
|
SG
|
A:CYS20
|
4.8
|
10.7
|
1.0
|
|
N
|
A:PHE2
|
4.9
|
12.3
|
1.0
|
|
CD1
|
A:PHE2
|
4.9
|
12.6
|
1.0
|
|
SG
|
A:CYS42
|
4.9
|
10.8
|
1.0
|
|
HG13
|
A:ILE40
|
4.9
|
12.3
|
1.0
|
|
HG23
|
A:VAL22
|
4.9
|
21.2
|
1.0
|
|
Iron binding site 3 out
of 7 in 7fd1
Go back to
Iron Binding Sites List in 7fd1
Iron binding site 3 out
of 7 in the 7-Fe Ferredoxin From Azotobacter Vinelandii at pH 8.5, 100 K, 1.35 A
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 3 of 7-Fe Ferredoxin From Azotobacter Vinelandii at pH 8.5, 100 K, 1.35 A within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe107
b:9.9
occ:1.00
|
FE3
|
A:SF4107
|
0.0
|
9.9
|
1.0
|
|
SG
|
A:CYS42
|
2.2
|
10.8
|
1.0
|
|
S2
|
A:SF4107
|
2.2
|
9.9
|
1.0
|
|
S4
|
A:SF4107
|
2.3
|
11.0
|
1.0
|
|
S1
|
A:SF4107
|
2.3
|
9.9
|
1.0
|
|
FE1
|
A:SF4107
|
2.7
|
10.6
|
1.0
|
|
FE4
|
A:SF4107
|
2.7
|
10.0
|
1.0
|
|
FE2
|
A:SF4107
|
2.7
|
10.1
|
1.0
|
|
H
|
A:CYS42
|
2.9
|
15.4
|
1.0
|
|
H
|
A:ALA43
|
3.2
|
12.8
|
1.0
|
|
HD2
|
A:PRO21
|
3.3
|
13.9
|
1.0
|
|
H
|
A:LEU44
|
3.4
|
11.4
|
1.0
|
|
CB
|
A:CYS42
|
3.5
|
12.3
|
1.0
|
|
N
|
A:CYS42
|
3.5
|
12.8
|
1.0
|
|
HB3
|
A:CYS42
|
3.7
|
14.8
|
1.0
|
|
N
|
A:ALA43
|
3.8
|
10.7
|
1.0
|
|
S3
|
A:SF4107
|
3.8
|
10.2
|
1.0
|
|
CA
|
A:CYS42
|
3.9
|
10.9
|
1.0
|
|
HB2
|
A:LEU44
|
4.1
|
17.6
|
1.0
|
|
H
|
A:CYS45
|
4.1
|
11.7
|
1.0
|
|
HG13
|
A:ILE40
|
4.1
|
12.3
|
1.0
|
|
CD
|
A:PRO21
|
4.2
|
11.6
|
1.0
|
|
N
|
A:LEU44
|
4.2
|
9.5
|
1.0
|
|
C
|
A:CYS42
|
4.2
|
12.6
|
1.0
|
|
HA
|
A:CYS20
|
4.2
|
11.6
|
1.0
|
|
HD3
|
A:PRO21
|
4.3
|
13.9
|
1.0
|
|
HB2
|
A:CYS42
|
4.3
|
14.8
|
1.0
|
|
H
|
A:ILE40
|
4.3
|
11.6
|
1.0
|
|
H
|
A:ASP41
|
4.4
|
12.8
|
1.0
|
|
HG2
|
A:PRO21
|
4.6
|
16.5
|
1.0
|
|
C
|
A:ASP41
|
4.6
|
12.2
|
1.0
|
|
SG
|
A:CYS20
|
4.6
|
10.7
|
1.0
|
|
HA
|
A:ALA43
|
4.7
|
14.1
|
1.0
|
|
HG12
|
A:ILE40
|
4.7
|
12.3
|
1.0
|
|
SG
|
A:CYS45
|
4.7
|
10.3
|
1.0
|
|
N
|
A:ASP41
|
4.7
|
10.7
|
1.0
|
|
CA
|
A:ALA43
|
4.7
|
11.7
|
1.0
|
|
SG
|
A:CYS39
|
4.7
|
10.3
|
1.0
|
|
HA
|
A:ASP41
|
4.7
|
12.8
|
1.0
|
|
CG
|
A:PRO21
|
4.8
|
13.7
|
1.0
|
|
HG3
|
A:PRO21
|
4.8
|
16.5
|
1.0
|
|
HG
|
A:LEU44
|
4.8
|
16.6
|
1.0
|
|
HA
|
A:CYS42
|
4.9
|
13.1
|
1.0
|
|
CG1
|
A:ILE40
|
4.9
|
10.2
|
1.0
|
|
HG23
|
A:VAL22
|
4.9
|
21.2
|
1.0
|
|
C
|
A:ALA43
|
4.9
|
10.9
|
1.0
|
|
CB
|
A:LEU44
|
4.9
|
14.6
|
1.0
|
|
N
|
A:CYS45
|
4.9
|
9.7
|
1.0
|
|
HB3
|
A:CYS45
|
4.9
|
13.4
|
1.0
|
|
CA
|
A:ASP41
|
4.9
|
10.7
|
1.0
|
|
Iron binding site 4 out
of 7 in 7fd1
Go back to
Iron Binding Sites List in 7fd1
Iron binding site 4 out
of 7 in the 7-Fe Ferredoxin From Azotobacter Vinelandii at pH 8.5, 100 K, 1.35 A
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 4 of 7-Fe Ferredoxin From Azotobacter Vinelandii at pH 8.5, 100 K, 1.35 A within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe107
b:10.0
occ:1.00
|
FE4
|
A:SF4107
|
0.0
|
10.0
|
1.0
|
|
S2
|
A:SF4107
|
2.2
|
9.9
|
1.0
|
|
SG
|
A:CYS45
|
2.3
|
10.3
|
1.0
|
|
S3
|
A:SF4107
|
2.3
|
10.2
|
1.0
|
|
S1
|
A:SF4107
|
2.3
|
9.9
|
1.0
|
|
FE3
|
A:SF4107
|
2.7
|
9.9
|
1.0
|
|
FE1
|
A:SF4107
|
2.7
|
10.6
|
1.0
|
|
FE2
|
A:SF4107
|
2.7
|
10.1
|
1.0
|
|
HB3
|
A:CYS45
|
3.0
|
13.4
|
1.0
|
|
H
|
A:CYS45
|
3.2
|
11.7
|
1.0
|
|
CB
|
A:CYS45
|
3.3
|
11.2
|
1.0
|
|
HB2
|
A:PHE2
|
3.8
|
11.5
|
1.0
|
|
HE2
|
A:PHE25
|
3.8
|
11.8
|
1.0
|
|
S4
|
A:SF4107
|
3.9
|
11.0
|
1.0
|
|
HZ
|
A:PHE25
|
3.9
|
10.3
|
1.0
|
|
HB2
|
A:CYS45
|
3.9
|
13.4
|
1.0
|
|
N
|
A:CYS45
|
4.0
|
9.7
|
1.0
|
|
HD12
|
A:ILE34
|
4.0
|
12.7
|
1.0
|
|
CA
|
A:CYS45
|
4.2
|
11.3
|
1.0
|
|
H
|
A:ALA43
|
4.3
|
12.8
|
1.0
|
|
H
|
A:LEU44
|
4.3
|
11.4
|
1.0
|
|
HD13
|
A:ILE34
|
4.4
|
12.7
|
1.0
|
|
CE2
|
A:PHE25
|
4.4
|
9.8
|
1.0
|
|
CZ
|
A:PHE25
|
4.4
|
8.6
|
1.0
|
|
CB
|
A:PHE2
|
4.6
|
9.6
|
1.0
|
|
SG
|
A:CYS42
|
4.6
|
10.8
|
1.0
|
|
HA
|
A:ALA43
|
4.6
|
14.1
|
1.0
|
|
HB2
|
A:CYS20
|
4.6
|
14.5
|
1.0
|
|
CD1
|
A:ILE34
|
4.6
|
8.5
|
1.0
|
|
HB3
|
A:PHE2
|
4.6
|
11.5
|
1.0
|
|
N
|
A:LEU44
|
4.7
|
9.5
|
1.0
|
|
SG
|
A:CYS39
|
4.7
|
10.3
|
1.0
|
|
SG
|
A:CYS20
|
4.8
|
10.7
|
1.0
|
|
CG
|
A:PHE2
|
4.8
|
9.1
|
1.0
|
|
HG23
|
A:ILE54
|
4.8
|
20.8
|
1.0
|
|
HA
|
A:CYS20
|
4.9
|
11.6
|
1.0
|
|
HD12
|
A:ILE54
|
4.9
|
15.4
|
1.0
|
|
N
|
A:ALA43
|
4.9
|
10.7
|
1.0
|
|
HA
|
A:CYS45
|
4.9
|
13.5
|
1.0
|
|
HG12
|
A:ILE34
|
4.9
|
10.1
|
1.0
|
|
H
|
A:GLU46
|
5.0
|
13.3
|
1.0
|
|
Iron binding site 5 out
of 7 in 7fd1
Go back to
Iron Binding Sites List in 7fd1
Iron binding site 5 out
of 7 in the 7-Fe Ferredoxin From Azotobacter Vinelandii at pH 8.5, 100 K, 1.35 A
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 5 of 7-Fe Ferredoxin From Azotobacter Vinelandii at pH 8.5, 100 K, 1.35 A within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe108
b:10.9
occ:1.00
|
FE1
|
A:F3S108
|
0.0
|
10.9
|
1.0
|
|
S2
|
A:F3S108
|
2.2
|
11.1
|
1.0
|
|
S1
|
A:F3S108
|
2.2
|
11.1
|
1.0
|
|
SG
|
A:CYS49
|
2.3
|
11.0
|
1.0
|
|
S3
|
A:F3S108
|
2.3
|
9.2
|
1.0
|
|
FE3
|
A:F3S108
|
2.6
|
10.7
|
1.0
|
|
FE4
|
A:F3S108
|
2.7
|
10.0
|
1.0
|
|
HB2
|
A:CYS49
|
3.2
|
14.7
|
1.0
|
|
CB
|
A:CYS49
|
3.3
|
12.2
|
1.0
|
|
HA
|
A:CYS49
|
3.5
|
12.6
|
1.0
|
|
HD2
|
A:PRO50
|
3.6
|
16.7
|
1.0
|
|
HB2
|
A:ALA51
|
3.7
|
18.7
|
1.0
|
|
HB2
|
A:TYR13
|
3.8
|
14.9
|
1.0
|
|
HD2
|
A:TYR13
|
3.8
|
13.9
|
1.0
|
|
S4
|
A:F3S108
|
3.8
|
10.5
|
1.0
|
|
H
|
A:ALA51
|
3.9
|
16.4
|
1.0
|
|
CA
|
A:CYS49
|
3.9
|
10.5
|
1.0
|
|
HB2
|
A:ALA53
|
4.1
|
17.0
|
1.0
|
|
HB3
|
A:CYS49
|
4.1
|
14.7
|
1.0
|
|
HB2
|
A:CYS8
|
4.2
|
12.8
|
1.0
|
|
H
|
A:TYR13
|
4.2
|
13.7
|
1.0
|
|
HB3
|
A:CYS16
|
4.2
|
12.6
|
1.0
|
|
HG13
|
A:ILE54
|
4.2
|
13.3
|
1.0
|
|
H
|
A:THR14
|
4.3
|
14.6
|
1.0
|
|
CD
|
A:PRO50
|
4.4
|
13.9
|
1.0
|
|
H
|
A:ALA53
|
4.4
|
12.6
|
1.0
|
|
HD13
|
A:ILE54
|
4.5
|
15.4
|
1.0
|
|
C
|
A:CYS49
|
4.5
|
11.7
|
1.0
|
|
HD3
|
A:PRO50
|
4.5
|
16.7
|
1.0
|
|
HA
|
A:CYS8
|
4.5
|
11.8
|
1.0
|
|
CB
|
A:ALA51
|
4.5
|
12.4
|
1.0
|
|
HB1
|
A:ALA51
|
4.6
|
18.7
|
1.0
|
|
SG
|
A:CYS16
|
4.7
|
10.7
|
1.0
|
|
N
|
A:PRO50
|
4.7
|
14.3
|
1.0
|
|
CD2
|
A:TYR13
|
4.7
|
11.6
|
1.0
|
|
SG
|
A:CYS8
|
4.7
|
9.5
|
1.0
|
|
N
|
A:ALA51
|
4.7
|
13.7
|
1.0
|
|
CB
|
A:TYR13
|
4.7
|
12.4
|
1.0
|
|
H
|
A:CYS16
|
4.8
|
16.9
|
1.0
|
|
CB
|
A:CYS8
|
4.8
|
10.7
|
1.0
|
|
HD11
|
A:ILE54
|
4.8
|
15.4
|
1.0
|
|
HG12
|
A:VAL4
|
4.8
|
12.2
|
1.0
|
|
N
|
A:TYR13
|
4.9
|
11.4
|
1.0
|
|
HB1
|
A:ALA53
|
4.9
|
17.0
|
1.0
|
|
CB
|
A:ALA53
|
4.9
|
11.3
|
1.0
|
|
CB
|
A:CYS16
|
4.9
|
10.5
|
1.0
|
|
HA
|
A:LYS12
|
4.9
|
13.0
|
1.0
|
|
CD1
|
A:ILE54
|
5.0
|
10.2
|
1.0
|
|
Iron binding site 6 out
of 7 in 7fd1
Go back to
Iron Binding Sites List in 7fd1
Iron binding site 6 out
of 7 in the 7-Fe Ferredoxin From Azotobacter Vinelandii at pH 8.5, 100 K, 1.35 A
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 6 of 7-Fe Ferredoxin From Azotobacter Vinelandii at pH 8.5, 100 K, 1.35 A within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe108
b:10.7
occ:1.00
|
FE3
|
A:F3S108
|
0.0
|
10.7
|
1.0
|
|
S4
|
A:F3S108
|
2.2
|
10.5
|
1.0
|
|
S1
|
A:F3S108
|
2.2
|
11.1
|
1.0
|
|
SG
|
A:CYS16
|
2.3
|
10.7
|
1.0
|
|
S3
|
A:F3S108
|
2.3
|
9.2
|
1.0
|
|
FE1
|
A:F3S108
|
2.6
|
10.9
|
1.0
|
|
FE4
|
A:F3S108
|
2.7
|
10.0
|
1.0
|
|
HB3
|
A:CYS16
|
3.0
|
12.6
|
1.0
|
|
HA
|
A:THR14
|
3.3
|
15.3
|
1.0
|
|
CB
|
A:CYS16
|
3.3
|
10.5
|
1.0
|
|
H
|
A:CYS16
|
3.3
|
16.9
|
1.0
|
|
H
|
A:THR14
|
3.3
|
14.6
|
1.0
|
|
HD23
|
A:LEU32
|
3.5
|
16.3
|
1.0
|
|
S2
|
A:F3S108
|
3.8
|
11.1
|
1.0
|
|
HD13
|
A:ILE54
|
3.9
|
15.4
|
1.0
|
|
HB2
|
A:CYS16
|
3.9
|
12.6
|
1.0
|
|
N
|
A:THR14
|
3.9
|
12.2
|
1.0
|
|
CA
|
A:THR14
|
4.0
|
12.7
|
1.0
|
|
N
|
A:CYS16
|
4.0
|
14.1
|
1.0
|
|
HB2
|
A:LEU32
|
4.1
|
14.0
|
1.0
|
|
H
|
A:ASP15
|
4.3
|
17.4
|
1.0
|
|
CA
|
A:CYS16
|
4.3
|
12.3
|
1.0
|
|
CD2
|
A:LEU32
|
4.4
|
10.9
|
1.0
|
|
HD21
|
A:LEU32
|
4.4
|
16.3
|
1.0
|
|
HB2
|
A:CYS49
|
4.4
|
14.7
|
1.0
|
|
C
|
A:THR14
|
4.4
|
12.9
|
1.0
|
|
HB2
|
A:TYR13
|
4.5
|
14.9
|
1.0
|
|
N
|
A:ASP15
|
4.5
|
14.5
|
1.0
|
|
H
|
A:TYR13
|
4.6
|
13.7
|
1.0
|
|
SG
|
A:CYS49
|
4.7
|
11.0
|
1.0
|
|
HA
|
A:LYS12
|
4.7
|
13.0
|
1.0
|
|
CD1
|
A:ILE54
|
4.7
|
10.2
|
1.0
|
|
HB3
|
A:LEU32
|
4.7
|
14.0
|
1.0
|
|
SG
|
A:CYS8
|
4.8
|
9.5
|
1.0
|
|
HA
|
A:CYS49
|
4.8
|
12.6
|
1.0
|
|
H
|
A:VAL17
|
4.8
|
12.8
|
1.0
|
|
HD11
|
A:ILE54
|
4.8
|
15.4
|
1.0
|
|
HE1
|
A:PHE25
|
4.8
|
10.8
|
1.0
|
|
CB
|
A:LEU32
|
4.8
|
11.7
|
1.0
|
|
N
|
A:TYR13
|
4.9
|
11.4
|
1.0
|
|
HG13
|
A:ILE54
|
4.9
|
13.3
|
1.0
|
|
HA
|
A:CYS16
|
4.9
|
14.8
|
1.0
|
|
HG21
|
A:THR14
|
5.0
|
18.4
|
1.0
|
|
CB
|
A:CYS49
|
5.0
|
12.2
|
1.0
|
|
HD22
|
A:LEU32
|
5.0
|
16.3
|
1.0
|
|
HG12
|
A:VAL17
|
5.0
|
24.5
|
1.0
|
|
Iron binding site 7 out
of 7 in 7fd1
Go back to
Iron Binding Sites List in 7fd1
Iron binding site 7 out
of 7 in the 7-Fe Ferredoxin From Azotobacter Vinelandii at pH 8.5, 100 K, 1.35 A
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 7 of 7-Fe Ferredoxin From Azotobacter Vinelandii at pH 8.5, 100 K, 1.35 A within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe108
b:10.0
occ:1.00
|
FE4
|
A:F3S108
|
0.0
|
10.0
|
1.0
|
|
S4
|
A:F3S108
|
2.2
|
10.5
|
1.0
|
|
SG
|
A:CYS8
|
2.2
|
9.5
|
1.0
|
|
S2
|
A:F3S108
|
2.2
|
11.1
|
1.0
|
|
S3
|
A:F3S108
|
2.3
|
9.2
|
1.0
|
|
FE1
|
A:F3S108
|
2.7
|
10.9
|
1.0
|
|
FE3
|
A:F3S108
|
2.7
|
10.7
|
1.0
|
|
HB2
|
A:CYS8
|
2.9
|
12.8
|
1.0
|
|
HA
|
A:LYS12
|
3.0
|
13.0
|
1.0
|
|
CB
|
A:CYS8
|
3.1
|
10.7
|
1.0
|
|
HA
|
A:CYS8
|
3.6
|
11.8
|
1.0
|
|
HB2
|
A:LEU32
|
3.6
|
14.0
|
1.0
|
|
H
|
A:TYR13
|
3.7
|
13.7
|
1.0
|
|
HG13
|
A:VAL4
|
3.8
|
12.2
|
1.0
|
|
S1
|
A:F3S108
|
3.9
|
11.1
|
1.0
|
|
CA
|
A:LYS12
|
3.9
|
10.9
|
1.0
|
|
HB3
|
A:CYS8
|
3.9
|
12.8
|
1.0
|
|
CA
|
A:CYS8
|
3.9
|
9.8
|
1.0
|
|
H
|
A:LYS12
|
4.0
|
14.2
|
1.0
|
|
HG12
|
A:VAL4
|
4.0
|
12.2
|
1.0
|
|
H
|
A:THR14
|
4.1
|
14.6
|
1.0
|
|
H
|
A:LEU32
|
4.3
|
11.4
|
1.0
|
|
N
|
A:TYR13
|
4.3
|
11.4
|
1.0
|
|
N
|
A:LYS12
|
4.3
|
11.9
|
1.0
|
|
CG1
|
A:VAL4
|
4.4
|
8.1
|
1.0
|
|
C
|
A:LYS12
|
4.5
|
12.2
|
1.0
|
|
O
|
A:CYS8
|
4.5
|
10.4
|
1.0
|
|
HD23
|
A:LEU32
|
4.5
|
16.3
|
1.0
|
|
HB2
|
A:ALA53
|
4.6
|
17.0
|
1.0
|
|
CB
|
A:LEU32
|
4.6
|
11.7
|
1.0
|
|
HG3
|
A:LYS12
|
4.6
|
15.0
|
1.0
|
|
SG
|
A:CYS49
|
4.7
|
11.0
|
1.0
|
|
C
|
A:CYS8
|
4.7
|
9.6
|
1.0
|
|
HB2
|
A:TYR13
|
4.7
|
14.9
|
1.0
|
|
HG11
|
A:VAL4
|
4.8
|
12.2
|
1.0
|
|
SG
|
A:CYS16
|
4.8
|
10.7
|
1.0
|
|
HB3
|
A:LEU32
|
4.8
|
14.0
|
1.0
|
|
HD12
|
A:LEU32
|
4.8
|
28.5
|
1.0
|
|
HD2
|
A:TYR13
|
4.8
|
13.9
|
1.0
|
|
HA
|
A:THR14
|
4.9
|
15.3
|
1.0
|
|
N
|
A:THR14
|
4.9
|
12.2
|
1.0
|
|
N
|
A:LEU32
|
4.9
|
9.5
|
1.0
|
|
HB2
|
A:ALA51
|
4.9
|
18.7
|
1.0
|
|
CB
|
A:LYS12
|
5.0
|
11.0
|
1.0
|
|
Reference:
C.G.Schipke,
D.B.Goodin,
D.E.Mcree,
C.D.Stout.
Oxidized and Reduced Azotobacter Vinelandii Ferredoxin I at 1.4 A Resolution: Conformational Change of Surface Residues Without Significant Change in the [3FE-4S]+/0 Cluster. Biochemistry V. 38 8228 1999.
ISSN: ISSN 0006-2960
PubMed: 10387068
DOI: 10.1021/BI983008I
Page generated: Thu Aug 8 05:40:17 2024
|
