Iron in PDB 1isu: The Three-Dimensional Structure of the High-Potential Iron-Sulfur Protein Isolated From the Purple Phototrophic Bacterium Rhodocyclus Tenuis Determined and Refined at 1.5 Angstroms Resolution
Protein crystallography data
The structure of The Three-Dimensional Structure of the High-Potential Iron-Sulfur Protein Isolated From the Purple Phototrophic Bacterium Rhodocyclus Tenuis Determined and Refined at 1.5 Angstroms Resolution, PDB code: 1isu
was solved by
H.M.Holden,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
30.00 /
1.50
|
Space group
|
P 1 21 1
|
Cell size a, b, c (Å), α, β, γ (°)
|
36.700,
52.600,
27.600,
90.00,
90.80,
90.00
|
R / Rfree (%)
|
n/a /
n/a
|
Iron Binding Sites:
The binding sites of Iron atom in the The Three-Dimensional Structure of the High-Potential Iron-Sulfur Protein Isolated From the Purple Phototrophic Bacterium Rhodocyclus Tenuis Determined and Refined at 1.5 Angstroms Resolution
(pdb code 1isu). This binding sites where shown within
5.0 Angstroms radius around Iron atom.
In total 8 binding sites of Iron where determined in the
The Three-Dimensional Structure of the High-Potential Iron-Sulfur Protein Isolated From the Purple Phototrophic Bacterium Rhodocyclus Tenuis Determined and Refined at 1.5 Angstroms Resolution, PDB code: 1isu:
Jump to Iron binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
Iron binding site 1 out
of 8 in 1isu
Go back to
Iron Binding Sites List in 1isu
Iron binding site 1 out
of 8 in the The Three-Dimensional Structure of the High-Potential Iron-Sulfur Protein Isolated From the Purple Phototrophic Bacterium Rhodocyclus Tenuis Determined and Refined at 1.5 Angstroms Resolution
Mono view
Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 1 of The Three-Dimensional Structure of the High-Potential Iron-Sulfur Protein Isolated From the Purple Phototrophic Bacterium Rhodocyclus Tenuis Determined and Refined at 1.5 Angstroms Resolution within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe63
b:7.3
occ:1.00
|
FE1
|
A:SF463
|
0.0
|
7.3
|
1.0
|
S2
|
A:SF463
|
2.2
|
6.7
|
1.0
|
SG
|
A:CYS22
|
2.3
|
6.6
|
1.0
|
S4
|
A:SF463
|
2.3
|
7.2
|
1.0
|
S3
|
A:SF463
|
2.3
|
6.9
|
1.0
|
FE4
|
A:SF463
|
2.7
|
7.5
|
1.0
|
FE3
|
A:SF463
|
2.7
|
7.4
|
1.0
|
FE2
|
A:SF463
|
2.8
|
7.3
|
1.0
|
CB
|
A:CYS22
|
3.2
|
8.7
|
1.0
|
CA
|
A:CYS22
|
3.7
|
4.1
|
1.0
|
S1
|
A:SF463
|
3.9
|
6.8
|
1.0
|
CG2
|
A:ILE49
|
4.3
|
7.9
|
1.0
|
N
|
A:CYS22
|
4.3
|
4.4
|
1.0
|
N
|
A:CYS55
|
4.5
|
6.8
|
1.0
|
CA
|
A:TYR54
|
4.6
|
7.2
|
1.0
|
C
|
A:TYR54
|
4.7
|
8.9
|
1.0
|
SG
|
A:CYS55
|
4.7
|
7.9
|
1.0
|
SG
|
A:CYS40
|
4.8
|
8.5
|
1.0
|
SG
|
A:CYS25
|
4.8
|
7.0
|
1.0
|
N
|
A:TYR54
|
4.8
|
6.2
|
1.0
|
CB
|
A:CYS25
|
4.8
|
7.3
|
1.0
|
C
|
A:CYS22
|
4.9
|
7.4
|
1.0
|
CE2
|
A:TYR12
|
5.0
|
15.6
|
1.0
|
CB
|
A:CYS55
|
5.0
|
7.1
|
1.0
|
|
Iron binding site 2 out
of 8 in 1isu
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Iron Binding Sites List in 1isu
Iron binding site 2 out
of 8 in the The Three-Dimensional Structure of the High-Potential Iron-Sulfur Protein Isolated From the Purple Phototrophic Bacterium Rhodocyclus Tenuis Determined and Refined at 1.5 Angstroms Resolution
Mono view
Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 2 of The Three-Dimensional Structure of the High-Potential Iron-Sulfur Protein Isolated From the Purple Phototrophic Bacterium Rhodocyclus Tenuis Determined and Refined at 1.5 Angstroms Resolution within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe63
b:7.3
occ:1.00
|
FE2
|
A:SF463
|
0.0
|
7.3
|
1.0
|
S1
|
A:SF463
|
2.2
|
6.8
|
1.0
|
S4
|
A:SF463
|
2.3
|
7.2
|
1.0
|
SG
|
A:CYS25
|
2.3
|
7.0
|
1.0
|
S3
|
A:SF463
|
2.3
|
6.9
|
1.0
|
FE4
|
A:SF463
|
2.7
|
7.5
|
1.0
|
FE3
|
A:SF463
|
2.7
|
7.4
|
1.0
|
FE1
|
A:SF463
|
2.8
|
7.3
|
1.0
|
CB
|
A:CYS25
|
3.2
|
7.3
|
1.0
|
S2
|
A:SF463
|
3.9
|
6.7
|
1.0
|
CB
|
A:GLN27
|
4.1
|
6.7
|
1.0
|
CA
|
A:PHE58
|
4.1
|
4.5
|
1.0
|
N
|
A:PHE58
|
4.5
|
4.2
|
1.0
|
SG
|
A:CYS40
|
4.5
|
8.5
|
1.0
|
CA
|
A:CYS25
|
4.7
|
7.3
|
1.0
|
CG
|
A:GLN27
|
4.7
|
9.4
|
1.0
|
N
|
A:PHE28
|
4.7
|
7.3
|
1.0
|
O
|
A:ALA57
|
4.7
|
8.3
|
1.0
|
CA
|
A:CYS22
|
4.7
|
4.1
|
1.0
|
N
|
A:GLN27
|
4.7
|
5.2
|
1.0
|
SG
|
A:CYS55
|
4.8
|
7.9
|
1.0
|
C
|
A:ALA57
|
4.8
|
8.3
|
1.0
|
SG
|
A:CYS22
|
4.8
|
6.6
|
1.0
|
CB
|
A:PHE58
|
4.8
|
7.0
|
1.0
|
CA
|
A:GLN27
|
4.8
|
6.1
|
1.0
|
CD1
|
A:PHE58
|
4.8
|
7.2
|
1.0
|
C
|
A:GLN27
|
4.9
|
6.7
|
1.0
|
|
Iron binding site 3 out
of 8 in 1isu
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Iron Binding Sites List in 1isu
Iron binding site 3 out
of 8 in the The Three-Dimensional Structure of the High-Potential Iron-Sulfur Protein Isolated From the Purple Phototrophic Bacterium Rhodocyclus Tenuis Determined and Refined at 1.5 Angstroms Resolution
Mono view
Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 3 of The Three-Dimensional Structure of the High-Potential Iron-Sulfur Protein Isolated From the Purple Phototrophic Bacterium Rhodocyclus Tenuis Determined and Refined at 1.5 Angstroms Resolution within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe63
b:7.4
occ:1.00
|
FE3
|
A:SF463
|
0.0
|
7.4
|
1.0
|
SG
|
A:CYS40
|
2.1
|
8.5
|
1.0
|
S2
|
A:SF463
|
2.3
|
6.7
|
1.0
|
S4
|
A:SF463
|
2.3
|
7.2
|
1.0
|
S1
|
A:SF463
|
2.3
|
6.8
|
1.0
|
FE4
|
A:SF463
|
2.7
|
7.5
|
1.0
|
FE1
|
A:SF463
|
2.7
|
7.3
|
1.0
|
FE2
|
A:SF463
|
2.7
|
7.3
|
1.0
|
CB
|
A:CYS40
|
3.1
|
10.4
|
1.0
|
S3
|
A:SF463
|
3.9
|
6.9
|
1.0
|
SG
|
A:CYS55
|
4.3
|
7.9
|
1.0
|
CB
|
A:GLN27
|
4.3
|
6.7
|
1.0
|
CA
|
A:CYS40
|
4.3
|
7.2
|
1.0
|
CD1
|
A:ILE43
|
4.7
|
19.4
|
1.0
|
SG
|
A:CYS22
|
4.8
|
6.6
|
1.0
|
SG
|
A:CYS25
|
4.8
|
7.0
|
1.0
|
CG2
|
A:ILE49
|
4.9
|
7.9
|
1.0
|
C
|
A:GLN27
|
4.9
|
6.7
|
1.0
|
O
|
A:GLN27
|
4.9
|
7.6
|
1.0
|
CG1
|
A:ILE43
|
4.9
|
13.4
|
1.0
|
N
|
A:PHE28
|
5.0
|
7.3
|
1.0
|
CB
|
A:VAL42
|
5.0
|
12.0
|
1.0
|
|
Iron binding site 4 out
of 8 in 1isu
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Iron Binding Sites List in 1isu
Iron binding site 4 out
of 8 in the The Three-Dimensional Structure of the High-Potential Iron-Sulfur Protein Isolated From the Purple Phototrophic Bacterium Rhodocyclus Tenuis Determined and Refined at 1.5 Angstroms Resolution
Mono view
Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 4 of The Three-Dimensional Structure of the High-Potential Iron-Sulfur Protein Isolated From the Purple Phototrophic Bacterium Rhodocyclus Tenuis Determined and Refined at 1.5 Angstroms Resolution within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe63
b:7.5
occ:1.00
|
FE4
|
A:SF463
|
0.0
|
7.5
|
1.0
|
SG
|
A:CYS55
|
2.2
|
7.9
|
1.0
|
S1
|
A:SF463
|
2.3
|
6.8
|
1.0
|
S2
|
A:SF463
|
2.3
|
6.7
|
1.0
|
S3
|
A:SF463
|
2.3
|
6.9
|
1.0
|
FE3
|
A:SF463
|
2.7
|
7.4
|
1.0
|
FE1
|
A:SF463
|
2.7
|
7.3
|
1.0
|
FE2
|
A:SF463
|
2.7
|
7.3
|
1.0
|
CB
|
A:CYS55
|
3.1
|
7.1
|
1.0
|
N
|
A:CYS55
|
3.6
|
6.8
|
1.0
|
CA
|
A:CYS55
|
3.6
|
5.5
|
1.0
|
S4
|
A:SF463
|
3.8
|
7.2
|
1.0
|
C
|
A:CYS55
|
4.1
|
8.0
|
1.0
|
O
|
A:CYS55
|
4.2
|
6.4
|
1.0
|
N
|
A:PHE58
|
4.3
|
4.2
|
1.0
|
C
|
A:TYR54
|
4.4
|
8.9
|
1.0
|
SG
|
A:CYS40
|
4.4
|
8.5
|
1.0
|
C
|
A:ALA57
|
4.6
|
8.3
|
1.0
|
N
|
A:ALA57
|
4.6
|
5.7
|
1.0
|
CB
|
A:ALA57
|
4.6
|
7.8
|
1.0
|
CA
|
A:PHE58
|
4.7
|
4.5
|
1.0
|
SG
|
A:CYS22
|
4.7
|
6.6
|
1.0
|
CA
|
A:ALA57
|
4.8
|
4.8
|
1.0
|
SG
|
A:CYS25
|
4.9
|
7.0
|
1.0
|
|
Iron binding site 5 out
of 8 in 1isu
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Iron Binding Sites List in 1isu
Iron binding site 5 out
of 8 in the The Three-Dimensional Structure of the High-Potential Iron-Sulfur Protein Isolated From the Purple Phototrophic Bacterium Rhodocyclus Tenuis Determined and Refined at 1.5 Angstroms Resolution
Mono view
Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 5 of The Three-Dimensional Structure of the High-Potential Iron-Sulfur Protein Isolated From the Purple Phototrophic Bacterium Rhodocyclus Tenuis Determined and Refined at 1.5 Angstroms Resolution within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Fe63
b:11.3
occ:1.00
|
FE1
|
B:SF463
|
0.0
|
11.3
|
1.0
|
S2
|
B:SF463
|
2.1
|
9.6
|
1.0
|
SG
|
B:CYS22
|
2.2
|
10.2
|
1.0
|
S3
|
B:SF463
|
2.3
|
10.9
|
1.0
|
S4
|
B:SF463
|
2.3
|
10.3
|
1.0
|
FE4
|
B:SF463
|
2.7
|
10.7
|
1.0
|
FE2
|
B:SF463
|
2.8
|
11.4
|
1.0
|
FE3
|
B:SF463
|
2.8
|
10.4
|
1.0
|
CB
|
B:CYS22
|
3.2
|
12.8
|
1.0
|
CA
|
B:CYS22
|
3.7
|
10.5
|
1.0
|
S1
|
B:SF463
|
3.9
|
9.1
|
1.0
|
CG2
|
B:ILE49
|
4.2
|
11.7
|
1.0
|
N
|
B:CYS22
|
4.3
|
11.4
|
1.0
|
CA
|
B:TYR54
|
4.6
|
13.2
|
1.0
|
N
|
B:CYS55
|
4.7
|
11.9
|
1.0
|
N
|
B:TYR54
|
4.8
|
13.3
|
1.0
|
SG
|
B:CYS25
|
4.8
|
12.0
|
1.0
|
C
|
B:TYR54
|
4.8
|
13.9
|
1.0
|
CE1
|
B:TYR12
|
4.8
|
15.3
|
1.0
|
CB
|
B:CYS25
|
4.8
|
9.9
|
1.0
|
SG
|
B:CYS55
|
4.9
|
9.3
|
1.0
|
SG
|
B:CYS40
|
4.9
|
9.6
|
1.0
|
C
|
B:CYS22
|
4.9
|
11.6
|
1.0
|
CD1
|
B:TYR12
|
4.9
|
14.4
|
1.0
|
C
|
B:GLY53
|
5.0
|
14.2
|
1.0
|
O
|
B:GLY53
|
5.0
|
11.6
|
1.0
|
|
Iron binding site 6 out
of 8 in 1isu
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Iron Binding Sites List in 1isu
Iron binding site 6 out
of 8 in the The Three-Dimensional Structure of the High-Potential Iron-Sulfur Protein Isolated From the Purple Phototrophic Bacterium Rhodocyclus Tenuis Determined and Refined at 1.5 Angstroms Resolution
Mono view
Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 6 of The Three-Dimensional Structure of the High-Potential Iron-Sulfur Protein Isolated From the Purple Phototrophic Bacterium Rhodocyclus Tenuis Determined and Refined at 1.5 Angstroms Resolution within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Fe63
b:11.4
occ:1.00
|
FE2
|
B:SF463
|
0.0
|
11.4
|
1.0
|
S1
|
B:SF463
|
2.2
|
9.1
|
1.0
|
S3
|
B:SF463
|
2.3
|
10.9
|
1.0
|
SG
|
B:CYS25
|
2.3
|
12.0
|
1.0
|
S4
|
B:SF463
|
2.3
|
10.3
|
1.0
|
FE4
|
B:SF463
|
2.7
|
10.7
|
1.0
|
FE3
|
B:SF463
|
2.8
|
10.4
|
1.0
|
FE1
|
B:SF463
|
2.8
|
11.3
|
1.0
|
CB
|
B:CYS25
|
3.2
|
9.9
|
1.0
|
S2
|
B:SF463
|
3.8
|
9.6
|
1.0
|
CA
|
B:PHE58
|
4.1
|
11.6
|
1.0
|
CB
|
B:GLN27
|
4.1
|
12.2
|
1.0
|
NE2
|
B:GLN27
|
4.4
|
11.9
|
1.0
|
N
|
B:PHE58
|
4.4
|
13.2
|
1.0
|
CB
|
B:PHE58
|
4.6
|
16.2
|
1.0
|
SG
|
B:CYS40
|
4.6
|
9.6
|
1.0
|
CD1
|
B:PHE58
|
4.6
|
18.6
|
1.0
|
N
|
B:GLN27
|
4.7
|
9.2
|
1.0
|
CA
|
B:CYS25
|
4.7
|
11.6
|
1.0
|
SG
|
B:CYS22
|
4.7
|
10.2
|
1.0
|
CA
|
B:CYS22
|
4.7
|
10.5
|
1.0
|
N
|
B:PHE28
|
4.7
|
11.1
|
1.0
|
CA
|
B:GLN27
|
4.7
|
12.6
|
1.0
|
SG
|
B:CYS55
|
4.8
|
9.3
|
1.0
|
C
|
B:ALA57
|
4.8
|
11.3
|
1.0
|
C
|
B:GLN27
|
4.9
|
13.8
|
1.0
|
CB
|
B:CYS22
|
4.9
|
12.8
|
1.0
|
O
|
B:ALA57
|
5.0
|
10.6
|
1.0
|
|
Iron binding site 7 out
of 8 in 1isu
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Iron Binding Sites List in 1isu
Iron binding site 7 out
of 8 in the The Three-Dimensional Structure of the High-Potential Iron-Sulfur Protein Isolated From the Purple Phototrophic Bacterium Rhodocyclus Tenuis Determined and Refined at 1.5 Angstroms Resolution
Mono view
Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 7 of The Three-Dimensional Structure of the High-Potential Iron-Sulfur Protein Isolated From the Purple Phototrophic Bacterium Rhodocyclus Tenuis Determined and Refined at 1.5 Angstroms Resolution within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Fe63
b:10.4
occ:1.00
|
FE3
|
B:SF463
|
0.0
|
10.4
|
1.0
|
SG
|
B:CYS40
|
2.2
|
9.6
|
1.0
|
S2
|
B:SF463
|
2.3
|
9.6
|
1.0
|
S4
|
B:SF463
|
2.3
|
10.3
|
1.0
|
S1
|
B:SF463
|
2.4
|
9.1
|
1.0
|
FE4
|
B:SF463
|
2.7
|
10.7
|
1.0
|
FE2
|
B:SF463
|
2.8
|
11.4
|
1.0
|
FE1
|
B:SF463
|
2.8
|
11.3
|
1.0
|
CB
|
B:CYS40
|
3.2
|
9.9
|
1.0
|
S3
|
B:SF463
|
3.9
|
10.9
|
1.0
|
CB
|
B:GLN27
|
4.2
|
12.2
|
1.0
|
CA
|
B:CYS40
|
4.3
|
9.2
|
1.0
|
SG
|
B:CYS55
|
4.6
|
9.3
|
1.0
|
CD1
|
B:ILE43
|
4.6
|
10.2
|
1.0
|
CG2
|
B:VAL42
|
4.7
|
11.8
|
1.0
|
SG
|
B:CYS22
|
4.8
|
10.2
|
1.0
|
SG
|
B:CYS25
|
4.8
|
12.0
|
1.0
|
C
|
B:GLN27
|
4.8
|
13.8
|
1.0
|
CG2
|
B:ILE49
|
4.8
|
11.7
|
1.0
|
CG1
|
B:ILE43
|
4.9
|
12.0
|
1.0
|
O
|
B:GLN27
|
4.9
|
9.8
|
1.0
|
N
|
B:PHE28
|
5.0
|
11.1
|
1.0
|
|
Iron binding site 8 out
of 8 in 1isu
Go back to
Iron Binding Sites List in 1isu
Iron binding site 8 out
of 8 in the The Three-Dimensional Structure of the High-Potential Iron-Sulfur Protein Isolated From the Purple Phototrophic Bacterium Rhodocyclus Tenuis Determined and Refined at 1.5 Angstroms Resolution
Mono view
Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 8 of The Three-Dimensional Structure of the High-Potential Iron-Sulfur Protein Isolated From the Purple Phototrophic Bacterium Rhodocyclus Tenuis Determined and Refined at 1.5 Angstroms Resolution within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Fe63
b:10.7
occ:1.00
|
FE4
|
B:SF463
|
0.0
|
10.7
|
1.0
|
S2
|
B:SF463
|
2.2
|
9.6
|
1.0
|
S3
|
B:SF463
|
2.3
|
10.9
|
1.0
|
SG
|
B:CYS55
|
2.3
|
9.3
|
1.0
|
S1
|
B:SF463
|
2.4
|
9.1
|
1.0
|
FE1
|
B:SF463
|
2.7
|
11.3
|
1.0
|
FE3
|
B:SF463
|
2.7
|
10.4
|
1.0
|
FE2
|
B:SF463
|
2.7
|
11.4
|
1.0
|
CB
|
B:CYS55
|
3.1
|
11.7
|
1.0
|
N
|
B:CYS55
|
3.7
|
11.9
|
1.0
|
CA
|
B:CYS55
|
3.8
|
13.2
|
1.0
|
S4
|
B:SF463
|
3.9
|
10.3
|
1.0
|
C
|
B:CYS55
|
4.2
|
9.2
|
1.0
|
N
|
B:PHE58
|
4.3
|
13.2
|
1.0
|
O
|
B:CYS55
|
4.3
|
12.3
|
1.0
|
C
|
B:TYR54
|
4.5
|
13.9
|
1.0
|
SG
|
B:CYS40
|
4.6
|
9.6
|
1.0
|
N
|
B:ALA57
|
4.6
|
7.4
|
1.0
|
C
|
B:ALA57
|
4.7
|
11.3
|
1.0
|
CB
|
B:ALA57
|
4.7
|
11.8
|
1.0
|
SG
|
B:CYS22
|
4.7
|
10.2
|
1.0
|
CA
|
B:PHE58
|
4.7
|
11.6
|
1.0
|
CA
|
B:ALA57
|
4.8
|
8.5
|
1.0
|
SG
|
B:CYS25
|
4.9
|
12.0
|
1.0
|
|
Reference:
I.Rayment,
G.Wesenberg,
T.E.Meyer,
M.A.Cusanovich,
H.M.Holden.
Three-Dimensional Structure of the High-Potential Iron-Sulfur Protein Isolated From the Purple Phototrophic Bacterium Rhodocyclus Tenuis Determined and Refined at 1.5 A Resolution. J.Mol.Biol. V. 228 672 1992.
ISSN: ISSN 0022-2836
PubMed: 1453470
DOI: 10.1016/0022-2836(92)90849-F
Page generated: Sat Aug 3 08:12:39 2024
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