Iron in PDB 2fdn: 2[4FE-4S] Ferredoxin From Clostridium Acidi-Urici
Protein crystallography data
The structure of 2[4FE-4S] Ferredoxin From Clostridium Acidi-Urici, PDB code: 2fdn
was solved by
Z.Dauter,
K.S.Wilson,
L.C.Sieker,
J.Meyer,
J.M.Moulis,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
|
Resolution Low / High (Å)
|
20.00 /
0.94
|
|
Space group
|
P 43 21 2
|
|
Cell size a, b, c (Å), α, β, γ (°)
|
33.950,
33.950,
74.820,
90.00,
90.00,
90.00
|
|
R / Rfree (%)
|
10 /
n/a
|
Iron Binding Sites:
The binding sites of Iron atom in the 2[4FE-4S] Ferredoxin From Clostridium Acidi-Urici
(pdb code 2fdn). This binding sites where shown within
5.0 Angstroms radius around Iron atom.
In total 8 binding sites of Iron where determined in the
2[4FE-4S] Ferredoxin From Clostridium Acidi-Urici, PDB code: 2fdn:
Jump to Iron binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
Iron binding site 1 out
of 8 in 2fdn
Go back to
Iron Binding Sites List in 2fdn
Iron binding site 1 out
of 8 in the 2[4FE-4S] Ferredoxin From Clostridium Acidi-Urici
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 1 of 2[4FE-4S] Ferredoxin From Clostridium Acidi-Urici within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe61
b:6.2
occ:1.00
|
FE1
|
A:SF461
|
0.0
|
6.2
|
1.0
|
|
S4
|
A:SF461
|
2.3
|
6.5
|
1.0
|
|
SG
|
A:CYS8
|
2.3
|
6.4
|
1.0
|
|
S3
|
A:SF461
|
2.3
|
6.7
|
1.0
|
|
S2
|
A:SF461
|
2.3
|
6.0
|
1.0
|
|
FE4
|
A:SF461
|
2.7
|
5.9
|
1.0
|
|
FE3
|
A:SF461
|
2.7
|
5.9
|
1.0
|
|
FE2
|
A:SF461
|
2.8
|
6.2
|
1.0
|
|
H
|
A:SER10
|
3.1
|
8.7
|
1.0
|
|
HA
|
A:CYS8
|
3.2
|
8.0
|
1.0
|
|
CB
|
A:CYS8
|
3.3
|
6.5
|
1.0
|
|
HB2
|
A:CYS8
|
3.4
|
7.8
|
1.0
|
|
HB2
|
A:TYR30
|
3.6
|
9.0
|
1.0
|
|
H
|
A:ILE9
|
3.6
|
8.7
|
1.0
|
|
CA
|
A:CYS8
|
3.7
|
6.7
|
1.0
|
|
S1
|
A:SF461
|
3.9
|
6.0
|
1.0
|
|
H
|
A:CYS11
|
3.9
|
9.6
|
1.0
|
|
N
|
A:SER10
|
3.9
|
7.3
|
1.0
|
|
HG23
|
A:ILE4
|
4.0
|
10.2
|
1.0
|
|
N
|
A:ILE9
|
4.1
|
7.2
|
1.0
|
|
HB2
|
A:ALA51
|
4.2
|
9.7
|
1.0
|
|
HB3
|
A:CYS8
|
4.2
|
7.8
|
1.0
|
|
HG22
|
A:ILE4
|
4.3
|
10.2
|
1.0
|
|
C
|
A:CYS8
|
4.3
|
7.0
|
1.0
|
|
H
|
A:TYR30
|
4.3
|
10.8
|
1.0
|
|
CA
|
A:SER10
|
4.4
|
7.3
|
1.0
|
|
HD11
|
A:ILE4
|
4.5
|
10.9
|
1.0
|
|
H
|
A:GLY12
|
4.5
|
9.5
|
1.0
|
|
CB
|
A:TYR30
|
4.5
|
7.5
|
1.0
|
|
HD1
|
A:TYR30
|
4.5
|
9.3
|
1.0
|
|
CG2
|
A:ILE4
|
4.6
|
6.8
|
1.0
|
|
N
|
A:CYS11
|
4.6
|
8.0
|
1.0
|
|
HG12
|
A:ILE9
|
4.7
|
10.3
|
1.0
|
|
SG
|
A:CYS47
|
4.7
|
6.0
|
1.0
|
|
CD1
|
A:TYR30
|
4.7
|
7.7
|
1.0
|
|
SG
|
A:CYS14
|
4.7
|
7.0
|
1.0
|
|
CG
|
A:TYR30
|
4.8
|
7.5
|
1.0
|
|
HB1
|
A:ALA51
|
4.8
|
9.7
|
1.0
|
|
CB
|
A:ALA51
|
4.9
|
6.5
|
1.0
|
|
HB3
|
A:TYR30
|
4.9
|
9.0
|
1.0
|
|
C
|
A:ILE9
|
4.9
|
7.2
|
1.0
|
|
SG
|
A:CYS11
|
5.0
|
7.6
|
1.0
|
|
N
|
A:CYS8
|
5.0
|
7.1
|
1.0
|
|
HG21
|
A:ILE4
|
5.0
|
10.2
|
1.0
|
|
Iron binding site 2 out
of 8 in 2fdn
Go back to
Iron Binding Sites List in 2fdn
Iron binding site 2 out
of 8 in the 2[4FE-4S] Ferredoxin From Clostridium Acidi-Urici
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 2 of 2[4FE-4S] Ferredoxin From Clostridium Acidi-Urici within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe61
b:6.2
occ:1.00
|
FE2
|
A:SF461
|
0.0
|
6.2
|
1.0
|
|
S3
|
A:SF461
|
2.3
|
6.7
|
1.0
|
|
SG
|
A:CYS11
|
2.3
|
7.6
|
1.0
|
|
S4
|
A:SF461
|
2.3
|
6.5
|
1.0
|
|
S1
|
A:SF461
|
2.3
|
6.0
|
1.0
|
|
FE4
|
A:SF461
|
2.7
|
5.9
|
1.0
|
|
FE1
|
A:SF461
|
2.8
|
6.2
|
1.0
|
|
FE3
|
A:SF461
|
2.8
|
5.9
|
1.0
|
|
H
|
A:CYS11
|
2.8
|
9.6
|
1.0
|
|
H
|
A:GLY12
|
3.1
|
9.5
|
1.0
|
|
H
|
A:ALA13
|
3.4
|
9.2
|
1.0
|
|
CB
|
A:CYS11
|
3.5
|
8.4
|
1.0
|
|
N
|
A:CYS11
|
3.5
|
8.0
|
1.0
|
|
HB3
|
A:CYS11
|
3.7
|
10.1
|
1.0
|
|
HD2
|
A:PRO48
|
3.7
|
8.1
|
1.0
|
|
N
|
A:GLY12
|
3.7
|
8.0
|
1.0
|
|
CA
|
A:CYS11
|
3.9
|
8.1
|
1.0
|
|
S2
|
A:SF461
|
3.9
|
6.0
|
1.0
|
|
H
|
A:CYS14
|
4.1
|
8.3
|
1.0
|
|
N
|
A:ALA13
|
4.1
|
7.7
|
1.0
|
|
H
|
A:SER10
|
4.1
|
8.7
|
1.0
|
|
HG12
|
A:ILE9
|
4.1
|
10.3
|
1.0
|
|
HB2
|
A:ALA13
|
4.2
|
13.0
|
1.0
|
|
C
|
A:CYS11
|
4.2
|
8.7
|
1.0
|
|
HB2
|
A:CYS11
|
4.3
|
10.1
|
1.0
|
|
H
|
A:ILE9
|
4.4
|
8.7
|
1.0
|
|
HG13
|
A:ILE9
|
4.5
|
10.3
|
1.0
|
|
HA
|
A:CYS47
|
4.5
|
6.8
|
1.0
|
|
N
|
A:SER10
|
4.5
|
7.3
|
1.0
|
|
CD
|
A:PRO48
|
4.6
|
6.8
|
1.0
|
|
C
|
A:SER10
|
4.6
|
7.8
|
1.0
|
|
CA
|
A:GLY12
|
4.6
|
8.7
|
1.0
|
|
SG
|
A:CYS47
|
4.6
|
6.0
|
1.0
|
|
SG
|
A:CYS14
|
4.7
|
7.0
|
1.0
|
|
C
|
A:GLY12
|
4.7
|
8.1
|
1.0
|
|
CA
|
A:SER10
|
4.8
|
7.3
|
1.0
|
|
SG
|
A:CYS8
|
4.8
|
6.4
|
1.0
|
|
CG1
|
A:ILE9
|
4.8
|
8.6
|
1.0
|
|
HD3
|
A:PRO48
|
4.8
|
8.1
|
1.0
|
|
HA2
|
A:GLY12
|
4.8
|
10.5
|
1.0
|
|
HB1
|
A:ALA13
|
4.8
|
13.0
|
1.0
|
|
CB
|
A:ALA13
|
4.8
|
8.7
|
1.0
|
|
HA
|
A:CYS11
|
4.8
|
9.7
|
1.0
|
|
N
|
A:CYS14
|
4.9
|
6.9
|
1.0
|
|
HG2
|
A:PRO48
|
4.9
|
8.5
|
1.0
|
|
CA
|
A:ALA13
|
5.0
|
8.2
|
1.0
|
|
Iron binding site 3 out
of 8 in 2fdn
Go back to
Iron Binding Sites List in 2fdn
Iron binding site 3 out
of 8 in the 2[4FE-4S] Ferredoxin From Clostridium Acidi-Urici
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 3 of 2[4FE-4S] Ferredoxin From Clostridium Acidi-Urici within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe61
b:5.9
occ:1.00
|
FE3
|
A:SF461
|
0.0
|
5.9
|
1.0
|
|
SG
|
A:CYS14
|
2.2
|
7.0
|
1.0
|
|
S2
|
A:SF461
|
2.3
|
6.0
|
1.0
|
|
S1
|
A:SF461
|
2.3
|
6.0
|
1.0
|
|
S4
|
A:SF461
|
2.3
|
6.5
|
1.0
|
|
FE4
|
A:SF461
|
2.7
|
5.9
|
1.0
|
|
FE1
|
A:SF461
|
2.7
|
6.2
|
1.0
|
|
FE2
|
A:SF461
|
2.8
|
6.2
|
1.0
|
|
HB3
|
A:CYS14
|
3.1
|
8.4
|
1.0
|
|
H
|
A:CYS14
|
3.2
|
8.3
|
1.0
|
|
CB
|
A:CYS14
|
3.3
|
7.0
|
1.0
|
|
S3
|
A:SF461
|
3.9
|
6.7
|
1.0
|
|
N
|
A:CYS14
|
3.9
|
6.9
|
1.0
|
|
HB2
|
A:CYS14
|
4.0
|
8.4
|
1.0
|
|
HB2
|
A:TYR30
|
4.1
|
9.0
|
1.0
|
|
HD11
|
A:ILE4
|
4.2
|
10.9
|
1.0
|
|
CA
|
A:CYS14
|
4.2
|
6.9
|
1.0
|
|
H
|
A:GLY12
|
4.3
|
9.5
|
1.0
|
|
H
|
A:ALA13
|
4.4
|
9.2
|
1.0
|
|
HB2
|
A:CYS47
|
4.4
|
6.7
|
1.0
|
|
HG3
|
A:PRO52
|
4.6
|
8.0
|
1.0
|
|
HB3
|
A:TYR30
|
4.6
|
9.0
|
1.0
|
|
N
|
A:ALA13
|
4.7
|
7.7
|
1.0
|
|
CB
|
A:TYR30
|
4.7
|
7.5
|
1.0
|
|
SG
|
A:CYS11
|
4.7
|
7.6
|
1.0
|
|
SG
|
A:CYS8
|
4.7
|
6.4
|
1.0
|
|
SG
|
A:CYS47
|
4.8
|
6.0
|
1.0
|
|
HD12
|
A:ILE4
|
4.8
|
10.9
|
1.0
|
|
CG
|
A:TYR30
|
4.8
|
7.5
|
1.0
|
|
HG23
|
A:ILE23
|
4.9
|
11.5
|
1.0
|
|
HD11
|
A:ILE23
|
4.9
|
13.2
|
1.0
|
|
HA
|
A:CYS47
|
4.9
|
6.8
|
1.0
|
|
HA2
|
A:GLY12
|
4.9
|
10.5
|
1.0
|
|
H
|
A:GLU15
|
4.9
|
8.5
|
1.0
|
|
HA
|
A:CYS14
|
4.9
|
8.2
|
1.0
|
|
HD2
|
A:TYR30
|
4.9
|
10.1
|
1.0
|
|
N
|
A:GLY12
|
4.9
|
8.0
|
1.0
|
|
CD1
|
A:ILE4
|
4.9
|
7.3
|
1.0
|
|
HB2
|
A:ALA13
|
4.9
|
13.0
|
1.0
|
|
HB2
|
A:CYS43
|
4.9
|
7.2
|
1.0
|
|
CD2
|
A:TYR30
|
5.0
|
8.4
|
1.0
|
|
C
|
A:GLY12
|
5.0
|
8.1
|
1.0
|
|
Iron binding site 4 out
of 8 in 2fdn
Go back to
Iron Binding Sites List in 2fdn
Iron binding site 4 out
of 8 in the 2[4FE-4S] Ferredoxin From Clostridium Acidi-Urici
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 4 of 2[4FE-4S] Ferredoxin From Clostridium Acidi-Urici within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe61
b:5.9
occ:1.00
|
FE4
|
A:SF461
|
0.0
|
5.9
|
1.0
|
|
SG
|
A:CYS47
|
2.3
|
6.0
|
1.0
|
|
S1
|
A:SF461
|
2.3
|
6.0
|
1.0
|
|
S2
|
A:SF461
|
2.3
|
6.0
|
1.0
|
|
S3
|
A:SF461
|
2.3
|
6.7
|
1.0
|
|
FE3
|
A:SF461
|
2.7
|
5.9
|
1.0
|
|
FE1
|
A:SF461
|
2.7
|
6.2
|
1.0
|
|
FE2
|
A:SF461
|
2.7
|
6.2
|
1.0
|
|
HB2
|
A:CYS47
|
3.1
|
6.7
|
1.0
|
|
CB
|
A:CYS47
|
3.2
|
5.6
|
1.0
|
|
HA
|
A:CYS47
|
3.3
|
6.8
|
1.0
|
|
HD2
|
A:PRO48
|
3.5
|
8.1
|
1.0
|
|
HD3
|
A:PRO52
|
3.6
|
6.8
|
1.0
|
|
HB2
|
A:ALA51
|
3.7
|
9.7
|
1.0
|
|
CA
|
A:CYS47
|
3.8
|
5.7
|
1.0
|
|
S4
|
A:SF461
|
3.8
|
6.5
|
1.0
|
|
HG23
|
A:VAL49
|
3.9
|
15.6
|
1.0
|
|
HB3
|
A:CYS47
|
4.0
|
6.7
|
1.0
|
|
H
|
A:ALA51
|
4.1
|
7.2
|
1.0
|
|
HA
|
A:CYS8
|
4.2
|
8.0
|
1.0
|
|
HG21
|
A:VAL49
|
4.3
|
15.6
|
1.0
|
|
HB1
|
A:ALA51
|
4.4
|
9.7
|
1.0
|
|
CD
|
A:PRO48
|
4.4
|
6.8
|
1.0
|
|
CB
|
A:ALA51
|
4.4
|
6.5
|
1.0
|
|
H
|
A:VAL49
|
4.4
|
8.7
|
1.0
|
|
HB3
|
A:CYS14
|
4.5
|
8.4
|
1.0
|
|
HG3
|
A:PRO52
|
4.5
|
8.0
|
1.0
|
|
CG2
|
A:VAL49
|
4.5
|
10.4
|
1.0
|
|
CD
|
A:PRO52
|
4.5
|
5.7
|
1.0
|
|
C
|
A:CYS47
|
4.6
|
6.1
|
1.0
|
|
SG
|
A:CYS11
|
4.6
|
7.6
|
1.0
|
|
H
|
A:ILE9
|
4.6
|
8.7
|
1.0
|
|
SG
|
A:CYS14
|
4.7
|
7.0
|
1.0
|
|
N
|
A:PRO48
|
4.8
|
6.5
|
1.0
|
|
SG
|
A:CYS8
|
4.8
|
6.4
|
1.0
|
|
HG2
|
A:PRO52
|
4.8
|
8.0
|
1.0
|
|
CG
|
A:PRO52
|
4.8
|
6.7
|
1.0
|
|
HG22
|
A:VAL49
|
4.8
|
15.6
|
1.0
|
|
HD2
|
A:PRO52
|
4.9
|
6.8
|
1.0
|
|
HD3
|
A:PRO48
|
4.9
|
8.1
|
1.0
|
|
N
|
A:ALA51
|
4.9
|
6.0
|
1.0
|
|
HB2
|
A:CYS8
|
4.9
|
7.8
|
1.0
|
|
HG12
|
A:ILE9
|
5.0
|
10.3
|
1.0
|
|
N
|
A:CYS47
|
5.0
|
5.7
|
1.0
|
|
HG2
|
A:PRO48
|
5.0
|
8.5
|
1.0
|
|
Iron binding site 5 out
of 8 in 2fdn
Go back to
Iron Binding Sites List in 2fdn
Iron binding site 5 out
of 8 in the 2[4FE-4S] Ferredoxin From Clostridium Acidi-Urici
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 5 of 2[4FE-4S] Ferredoxin From Clostridium Acidi-Urici within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe62
b:5.8
occ:1.00
|
FE1
|
A:SF462
|
0.0
|
5.8
|
1.0
|
|
S3
|
A:SF462
|
2.2
|
6.0
|
1.0
|
|
SG
|
A:CYS37
|
2.3
|
5.9
|
1.0
|
|
S2
|
A:SF462
|
2.3
|
5.9
|
1.0
|
|
S4
|
A:SF462
|
2.3
|
6.0
|
1.0
|
|
FE4
|
A:SF462
|
2.7
|
5.9
|
1.0
|
|
FE3
|
A:SF462
|
2.7
|
5.7
|
1.0
|
|
FE2
|
A:SF462
|
2.7
|
6.1
|
1.0
|
|
HA
|
A:CYS37
|
3.2
|
6.9
|
1.0
|
|
CB
|
A:CYS37
|
3.3
|
6.0
|
1.0
|
|
HB2
|
A:CYS37
|
3.3
|
7.2
|
1.0
|
|
H
|
A:ASP39
|
3.3
|
7.8
|
1.0
|
|
H
|
A:ILE38
|
3.5
|
7.7
|
1.0
|
|
HB2
|
A:TYR2
|
3.7
|
7.5
|
1.0
|
|
CA
|
A:CYS37
|
3.7
|
5.7
|
1.0
|
|
S1
|
A:SF462
|
3.9
|
6.2
|
1.0
|
|
H
|
A:CYS40
|
4.0
|
8.8
|
1.0
|
|
HD11
|
A:ILE32
|
4.0
|
9.2
|
1.0
|
|
N
|
A:ILE38
|
4.1
|
6.4
|
1.0
|
|
N
|
A:ASP39
|
4.1
|
6.5
|
1.0
|
|
H
|
A:TYR2
|
4.1
|
7.3
|
1.0
|
|
HB3
|
A:CYS37
|
4.1
|
7.2
|
1.0
|
|
HA
|
A:ASP39
|
4.2
|
8.3
|
1.0
|
|
HG22
|
A:ILE32
|
4.2
|
9.4
|
1.0
|
|
HG23
|
A:ILE32
|
4.2
|
9.4
|
1.0
|
|
HB2
|
A:ALA22
|
4.3
|
11.4
|
1.0
|
|
C
|
A:CYS37
|
4.3
|
6.0
|
1.0
|
|
HD13
|
A:ILE38
|
4.4
|
12.4
|
1.0
|
|
H
|
A:GLY41
|
4.6
|
8.3
|
1.0
|
|
CB
|
A:TYR2
|
4.6
|
6.2
|
1.0
|
|
CA
|
A:ASP39
|
4.6
|
6.9
|
1.0
|
|
CG2
|
A:ILE32
|
4.7
|
6.3
|
1.0
|
|
N
|
A:CYS40
|
4.7
|
7.3
|
1.0
|
|
SG
|
A:CYS43
|
4.8
|
6.0
|
1.0
|
|
SG
|
A:CYS18
|
4.8
|
6.4
|
1.0
|
|
HD1
|
A:TYR2
|
4.8
|
7.6
|
1.0
|
|
CD1
|
A:ILE32
|
4.9
|
6.1
|
1.0
|
|
HG12
|
A:ILE32
|
4.9
|
6.7
|
1.0
|
|
N
|
A:TYR2
|
4.9
|
6.1
|
1.0
|
|
SG
|
A:CYS40
|
4.9
|
7.4
|
1.0
|
|
HG23
|
A:VAL20
|
5.0
|
11.3
|
1.0
|
|
N
|
A:CYS37
|
5.0
|
6.0
|
1.0
|
|
C
|
A:ILE38
|
5.0
|
6.2
|
1.0
|
|
Iron binding site 6 out
of 8 in 2fdn
Go back to
Iron Binding Sites List in 2fdn
Iron binding site 6 out
of 8 in the 2[4FE-4S] Ferredoxin From Clostridium Acidi-Urici
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 6 of 2[4FE-4S] Ferredoxin From Clostridium Acidi-Urici within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe62
b:6.1
occ:1.00
|
FE2
|
A:SF462
|
0.0
|
6.1
|
1.0
|
|
S4
|
A:SF462
|
2.3
|
6.0
|
1.0
|
|
SG
|
A:CYS40
|
2.3
|
7.4
|
1.0
|
|
S3
|
A:SF462
|
2.3
|
6.0
|
1.0
|
|
S1
|
A:SF462
|
2.3
|
6.2
|
1.0
|
|
FE4
|
A:SF462
|
2.7
|
5.9
|
1.0
|
|
FE1
|
A:SF462
|
2.7
|
5.8
|
1.0
|
|
FE3
|
A:SF462
|
2.8
|
5.7
|
1.0
|
|
H
|
A:CYS40
|
2.9
|
8.8
|
1.0
|
|
H
|
A:GLY41
|
3.2
|
8.3
|
1.0
|
|
H
|
A:ALA42
|
3.3
|
7.8
|
1.0
|
|
HD2
|
A:PRO19
|
3.3
|
9.4
|
1.0
|
|
CB
|
A:CYS40
|
3.5
|
7.9
|
1.0
|
|
N
|
A:CYS40
|
3.5
|
7.3
|
1.0
|
|
HD13
|
A:ILE38
|
3.7
|
12.4
|
1.0
|
|
HB3
|
A:CYS40
|
3.7
|
9.4
|
1.0
|
|
N
|
A:GLY41
|
3.7
|
7.0
|
1.0
|
|
CA
|
A:CYS40
|
3.9
|
7.6
|
1.0
|
|
S2
|
A:SF462
|
3.9
|
5.9
|
1.0
|
|
H
|
A:CYS43
|
4.0
|
7.4
|
1.0
|
|
N
|
A:ALA42
|
4.0
|
6.5
|
1.0
|
|
HB2
|
A:ALA42
|
4.1
|
11.5
|
1.0
|
|
HD12
|
A:ILE38
|
4.1
|
12.4
|
1.0
|
|
C
|
A:CYS40
|
4.2
|
7.7
|
1.0
|
|
CD
|
A:PRO19
|
4.2
|
7.8
|
1.0
|
|
H
|
A:ASP39
|
4.2
|
7.8
|
1.0
|
|
HB2
|
A:CYS40
|
4.3
|
9.4
|
1.0
|
|
CD1
|
A:ILE38
|
4.4
|
8.3
|
1.0
|
|
H
|
A:ILE38
|
4.4
|
7.7
|
1.0
|
|
HD3
|
A:PRO19
|
4.4
|
9.4
|
1.0
|
|
HG2
|
A:PRO19
|
4.4
|
10.9
|
1.0
|
|
HA
|
A:CYS18
|
4.5
|
8.2
|
1.0
|
|
C
|
A:ASP39
|
4.5
|
7.6
|
1.0
|
|
HG3
|
A:PRO19
|
4.5
|
10.9
|
1.0
|
|
N
|
A:ASP39
|
4.6
|
6.5
|
1.0
|
|
SG
|
A:CYS18
|
4.6
|
6.4
|
1.0
|
|
CG
|
A:PRO19
|
4.6
|
9.1
|
1.0
|
|
CA
|
A:GLY41
|
4.7
|
7.0
|
1.0
|
|
SG
|
A:CYS43
|
4.7
|
6.0
|
1.0
|
|
HA
|
A:ASP39
|
4.7
|
8.3
|
1.0
|
|
SG
|
A:CYS37
|
4.7
|
5.9
|
1.0
|
|
HB1
|
A:ALA42
|
4.8
|
11.5
|
1.0
|
|
CB
|
A:ALA42
|
4.8
|
7.7
|
1.0
|
|
HA2
|
A:GLY41
|
4.8
|
8.3
|
1.0
|
|
C
|
A:GLY41
|
4.8
|
6.5
|
1.0
|
|
HA
|
A:CYS40
|
4.8
|
9.1
|
1.0
|
|
N
|
A:CYS43
|
4.8
|
6.2
|
1.0
|
|
CA
|
A:ASP39
|
4.8
|
6.9
|
1.0
|
|
HG23
|
A:VAL20
|
4.9
|
11.3
|
1.0
|
|
HD11
|
A:ILE38
|
4.9
|
12.4
|
1.0
|
|
CA
|
A:ALA42
|
4.9
|
6.8
|
1.0
|
|
Iron binding site 7 out
of 8 in 2fdn
Go back to
Iron Binding Sites List in 2fdn
Iron binding site 7 out
of 8 in the 2[4FE-4S] Ferredoxin From Clostridium Acidi-Urici
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 7 of 2[4FE-4S] Ferredoxin From Clostridium Acidi-Urici within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe62
b:5.7
occ:1.00
|
FE3
|
A:SF462
|
0.0
|
5.7
|
1.0
|
|
S1
|
A:SF462
|
2.2
|
6.2
|
1.0
|
|
SG
|
A:CYS43
|
2.3
|
6.0
|
1.0
|
|
S4
|
A:SF462
|
2.3
|
6.0
|
1.0
|
|
S2
|
A:SF462
|
2.3
|
5.9
|
1.0
|
|
FE4
|
A:SF462
|
2.7
|
5.9
|
1.0
|
|
FE1
|
A:SF462
|
2.7
|
5.8
|
1.0
|
|
FE2
|
A:SF462
|
2.8
|
6.1
|
1.0
|
|
HB3
|
A:CYS43
|
3.0
|
7.2
|
1.0
|
|
H
|
A:CYS43
|
3.1
|
7.4
|
1.0
|
|
CB
|
A:CYS43
|
3.2
|
6.0
|
1.0
|
|
HD12
|
A:ILE23
|
3.3
|
13.2
|
1.0
|
|
N
|
A:CYS43
|
3.9
|
6.2
|
1.0
|
|
S3
|
A:SF462
|
3.9
|
6.0
|
1.0
|
|
HB2
|
A:CYS43
|
4.0
|
7.2
|
1.0
|
|
HD11
|
A:ILE32
|
4.0
|
9.2
|
1.0
|
|
HB2
|
A:TYR2
|
4.0
|
7.5
|
1.0
|
|
HD12
|
A:ILE32
|
4.0
|
9.2
|
1.0
|
|
CA
|
A:CYS43
|
4.2
|
5.9
|
1.0
|
|
H
|
A:GLY41
|
4.2
|
8.3
|
1.0
|
|
CD1
|
A:ILE23
|
4.2
|
8.8
|
1.0
|
|
H
|
A:ALA42
|
4.3
|
7.8
|
1.0
|
|
HD13
|
A:ILE23
|
4.4
|
13.2
|
1.0
|
|
CD1
|
A:ILE32
|
4.4
|
6.1
|
1.0
|
|
HG12
|
A:ILE32
|
4.6
|
6.7
|
1.0
|
|
HB2
|
A:CYS18
|
4.6
|
7.8
|
1.0
|
|
N
|
A:ALA42
|
4.6
|
6.5
|
1.0
|
|
HG13
|
A:ILE23
|
4.6
|
9.9
|
1.0
|
|
H
|
A:ALA44
|
4.6
|
7.2
|
1.0
|
|
SG
|
A:CYS40
|
4.7
|
7.4
|
1.0
|
|
SG
|
A:CYS37
|
4.7
|
5.9
|
1.0
|
|
HA2
|
A:GLY41
|
4.7
|
8.3
|
1.0
|
|
CB
|
A:TYR2
|
4.7
|
6.2
|
1.0
|
|
HB3
|
A:TYR2
|
4.8
|
7.5
|
1.0
|
|
SG
|
A:CYS18
|
4.8
|
6.4
|
1.0
|
|
HA
|
A:CYS43
|
4.8
|
7.0
|
1.0
|
|
HA
|
A:CYS18
|
4.8
|
8.2
|
1.0
|
|
HB2
|
A:ALA42
|
4.8
|
11.5
|
1.0
|
|
N
|
A:GLY41
|
4.8
|
7.0
|
1.0
|
|
HD11
|
A:ILE23
|
4.9
|
13.2
|
1.0
|
|
CG
|
A:TYR2
|
4.9
|
6.0
|
1.0
|
|
CG1
|
A:ILE23
|
4.9
|
8.3
|
1.0
|
|
HD2
|
A:PRO19
|
4.9
|
9.4
|
1.0
|
|
HB3
|
A:PRO52
|
5.0
|
7.3
|
1.0
|
|
C
|
A:GLY41
|
5.0
|
6.5
|
1.0
|
|
HD2
|
A:TYR2
|
5.0
|
8.2
|
1.0
|
|
Iron binding site 8 out
of 8 in 2fdn
Go back to
Iron Binding Sites List in 2fdn
Iron binding site 8 out
of 8 in the 2[4FE-4S] Ferredoxin From Clostridium Acidi-Urici
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 8 of 2[4FE-4S] Ferredoxin From Clostridium Acidi-Urici within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe62
b:5.9
occ:1.00
|
FE4
|
A:SF462
|
0.0
|
5.9
|
1.0
|
|
S2
|
A:SF462
|
2.2
|
5.9
|
1.0
|
|
SG
|
A:CYS18
|
2.3
|
6.4
|
1.0
|
|
S1
|
A:SF462
|
2.3
|
6.2
|
1.0
|
|
S3
|
A:SF462
|
2.3
|
6.0
|
1.0
|
|
FE1
|
A:SF462
|
2.7
|
5.8
|
1.0
|
|
FE2
|
A:SF462
|
2.7
|
6.1
|
1.0
|
|
FE3
|
A:SF462
|
2.7
|
5.7
|
1.0
|
|
HB2
|
A:CYS18
|
3.2
|
7.8
|
1.0
|
|
HD2
|
A:PRO19
|
3.2
|
9.4
|
1.0
|
|
CB
|
A:CYS18
|
3.3
|
6.5
|
1.0
|
|
HA
|
A:CYS18
|
3.4
|
8.2
|
1.0
|
|
HB2
|
A:ALA22
|
3.5
|
11.4
|
1.0
|
|
HG23
|
A:VAL20
|
3.8
|
11.3
|
1.0
|
|
S4
|
A:SF462
|
3.9
|
6.0
|
1.0
|
|
CA
|
A:CYS18
|
3.9
|
6.8
|
1.0
|
|
HG13
|
A:ILE23
|
3.9
|
9.9
|
1.0
|
|
HD12
|
A:ILE23
|
4.0
|
13.2
|
1.0
|
|
HG21
|
A:VAL20
|
4.1
|
11.3
|
1.0
|
|
HB3
|
A:CYS18
|
4.1
|
7.8
|
1.0
|
|
CD
|
A:PRO19
|
4.2
|
7.8
|
1.0
|
|
H
|
A:ALA22
|
4.2
|
7.7
|
1.0
|
|
HA
|
A:CYS37
|
4.3
|
6.9
|
1.0
|
|
H
|
A:VAL20
|
4.3
|
9.3
|
1.0
|
|
HD13
|
A:ILE23
|
4.4
|
13.2
|
1.0
|
|
CG2
|
A:VAL20
|
4.4
|
7.5
|
1.0
|
|
CB
|
A:ALA22
|
4.4
|
7.6
|
1.0
|
|
HB3
|
A:CYS43
|
4.4
|
7.2
|
1.0
|
|
CD1
|
A:ILE23
|
4.5
|
8.8
|
1.0
|
|
HB1
|
A:ALA22
|
4.5
|
11.4
|
1.0
|
|
SG
|
A:CYS40
|
4.6
|
7.4
|
1.0
|
|
C
|
A:CYS18
|
4.6
|
6.7
|
1.0
|
|
N
|
A:PRO19
|
4.6
|
6.7
|
1.0
|
|
CG1
|
A:ILE23
|
4.6
|
8.3
|
1.0
|
|
HG2
|
A:PRO19
|
4.7
|
10.9
|
1.0
|
|
HD3
|
A:PRO19
|
4.7
|
9.4
|
1.0
|
|
HG22
|
A:VAL20
|
4.7
|
11.3
|
1.0
|
|
SG
|
A:CYS43
|
4.8
|
6.0
|
1.0
|
|
SG
|
A:CYS37
|
4.8
|
5.9
|
1.0
|
|
H
|
A:ILE38
|
4.8
|
7.7
|
1.0
|
|
H
|
A:CYS43
|
4.9
|
7.4
|
1.0
|
|
HB2
|
A:CYS37
|
4.9
|
7.2
|
1.0
|
|
N
|
A:ALA22
|
4.9
|
6.4
|
1.0
|
|
HB3
|
A:ALA22
|
5.0
|
11.4
|
1.0
|
|
Reference:
Z.Dauter,
K.S.Wilson,
L.C.Sieker,
J.Meyer,
J.M.Moulis.
Atomic Resolution (0.94 A) Structure of Clostridium Acidurici Ferredoxin. Detailed Geometry of [4FE-4S] Clusters in A Protein. Biochemistry V. 36 16065 1997.
ISSN: ISSN 0006-2960
PubMed: 9405040
DOI: 10.1021/BI972155Y
Page generated: Sun Dec 13 14:44:01 2020
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