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Iron in PDB 5fnn: Iron and Selenomethionine Containing Iron Sulfur Cluster Repair Protein Ytfe

Enzymatic activity of Iron and Selenomethionine Containing Iron Sulfur Cluster Repair Protein Ytfe

All present enzymatic activity of Iron and Selenomethionine Containing Iron Sulfur Cluster Repair Protein Ytfe:
1.7.2.5;

Protein crystallography data

The structure of Iron and Selenomethionine Containing Iron Sulfur Cluster Repair Protein Ytfe, PDB code: 5fnn was solved by F.-C.Lo, C.-C.Hsieh, M.Maestre-Reyna, C.-Y.Chen, T.-P.Ko, Y.-C.Horng, Y.-C.Lai, Y.-W.Chiang, C.-M.Chou, C.-H.Chiang, W.-N.Huang, W.-F.Liaw, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 77.58 / 2.09
Space group I 41
Cell size a, b, c (Å), α, β, γ (°) 98.620, 98.620, 125.669, 90.00, 90.00, 90.00
R / Rfree (%) 21.1 / 23.1

Other elements in 5fnn:

The structure of Iron and Selenomethionine Containing Iron Sulfur Cluster Repair Protein Ytfe also contains other interesting chemical elements:

Chlorine (Cl) 2 atoms

Iron Binding Sites:

The binding sites of Iron atom in the Iron and Selenomethionine Containing Iron Sulfur Cluster Repair Protein Ytfe (pdb code 5fnn). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 4 binding sites of Iron where determined in the Iron and Selenomethionine Containing Iron Sulfur Cluster Repair Protein Ytfe, PDB code: 5fnn:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in 5fnn

Go back to Iron Binding Sites List in 5fnn
Iron binding site 1 out of 4 in the Iron and Selenomethionine Containing Iron Sulfur Cluster Repair Protein Ytfe


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Iron and Selenomethionine Containing Iron Sulfur Cluster Repair Protein Ytfe within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe1221

b:41.0
occ:1.00
 OE1 A:GLU133 2.0 47.0 1.0
O A:O2033 2.0 42.0 1.0
OE2 A:GLU208 2.0 44.2 1.0
NE2 A:HIS204 2.1 41.1 1.0
NE2 A:HIS84 2.3 40.0 1.0
CE1 A:HIS204 2.8 40.4 1.0
CD A:GLU208 2.8 44.5 1.0
OE1 A:GLU208 3.0 41.4 1.0
FE A:FE1224 3.0 45.1 1.0
CD A:GLU133 3.1 52.6 1.0
CE1 A:HIS84 3.2 40.8 1.0
CD2 A:HIS204 3.3 42.6 1.0
CD2 A:HIS84 3.3 41.5 1.0
OE2 A:GLU133 3.5 49.9 1.0
CG2 A:ILE79 4.0 44.9 1.0
ND1 A:HIS204 4.0 39.5 1.0
CZ A:PHE138 4.2 47.4 1.0
CG A:GLU208 4.3 43.5 1.0
CG A:HIS204 4.3 40.4 1.0
ND1 A:HIS84 4.4 40.6 1.0
CG A:GLU133 4.4 50.7 1.0
NE2 A:HIS129 4.4 43.8 1.0
CG A:HIS84 4.4 40.6 1.0
CG A:MSE130 4.6 47.1 1.0
CD2 A:HIS129 4.6 44.3 1.0
CB A:GLU133 4.7 50.6 1.0
CE2 A:PHE138 4.8 48.3 1.0

Iron binding site 2 out of 4 in 5fnn

Go back to Iron Binding Sites List in 5fnn
Iron binding site 2 out of 4 in the Iron and Selenomethionine Containing Iron Sulfur Cluster Repair Protein Ytfe


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Iron and Selenomethionine Containing Iron Sulfur Cluster Repair Protein Ytfe within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe1224

b:45.1
occ:1.00
 O A:O2033 1.9 42.0 1.0
OE2 A:GLU133 2.0 49.9 1.0
OE1 A:GLU208 2.1 41.4 1.0
NE2 A:HIS129 2.2 43.8 1.0
NE2 A:HIS160 2.3 44.6 1.0
CD A:GLU133 2.7 52.6 1.0
OE1 A:GLU133 2.8 47.0 1.0
FE A:FE21221 3.0 41.0 1.0
CE1 A:HIS129 3.1 45.7 1.0
CD A:GLU208 3.2 44.5 1.0
CE1 A:HIS160 3.2 42.5 1.0
CD2 A:HIS160 3.3 44.6 1.0
CD2 A:HIS129 3.3 44.3 1.0
OE2 A:GLU208 3.6 44.2 1.0
CG A:GLU133 4.1 50.7 1.0
NE2 A:HIS204 4.2 41.1 1.0
ND1 A:HIS129 4.3 44.4 1.0
ND1 A:HIS160 4.3 43.7 1.0
CG A:HIS129 4.4 43.5 1.0
CG A:HIS160 4.4 44.6 1.0
CD1 A:ILE205 4.4 52.2 1.0
CG A:GLU208 4.5 43.5 1.0
CE1 A:HIS204 4.7 40.4 1.0
CZ A:PHE213 4.7 49.3 1.0
CB A:GLU208 4.8 44.9 1.0
CB A:MSE156 4.9 55.5 1.0

Iron binding site 3 out of 4 in 5fnn

Go back to Iron Binding Sites List in 5fnn
Iron binding site 3 out of 4 in the Iron and Selenomethionine Containing Iron Sulfur Cluster Repair Protein Ytfe


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Iron and Selenomethionine Containing Iron Sulfur Cluster Repair Protein Ytfe within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe1221

b:46.6
occ:1.00
 O B:O2019 2.0 47.5 1.0
OE1 B:GLU133 2.0 52.8 1.0
OE2 B:GLU208 2.0 48.0 1.0
NE2 B:HIS204 2.1 44.4 1.0
NE2 B:HIS84 2.3 48.9 1.0
CE1 B:HIS204 2.8 43.9 1.0
CD B:GLU208 2.8 47.9 1.0
OE1 B:GLU208 3.0 46.0 1.0
CD B:GLU133 3.1 57.9 1.0
FE B:FE1222 3.1 51.0 1.0
CE1 B:HIS84 3.3 49.4 1.0
CD2 B:HIS204 3.3 44.9 1.0
CD2 B:HIS84 3.4 48.0 1.0
OE2 B:GLU133 3.5 57.9 1.0
CG2 B:ILE79 4.0 46.7 1.0
ND1 B:HIS204 4.0 43.6 1.0
CZ B:PHE138 4.2 51.8 1.0
CG B:GLU208 4.3 49.1 1.0
CG B:HIS204 4.3 43.4 1.0
CG B:GLU133 4.4 54.7 1.0
ND1 B:HIS84 4.4 48.1 1.0
NE2 B:HIS129 4.4 52.4 1.0
CG B:HIS84 4.5 48.3 1.0
CD2 B:HIS129 4.6 52.0 1.0
CG B:MSE130 4.6 54.4 1.0
CB B:GLU133 4.7 52.1 1.0
CE2 B:PHE138 4.8 52.9 1.0

Iron binding site 4 out of 4 in 5fnn

Go back to Iron Binding Sites List in 5fnn
Iron binding site 4 out of 4 in the Iron and Selenomethionine Containing Iron Sulfur Cluster Repair Protein Ytfe


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Iron and Selenomethionine Containing Iron Sulfur Cluster Repair Protein Ytfe within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe1222

b:51.0
occ:1.00
 O B:O2019 1.8 47.5 1.0
OE2 B:GLU133 2.0 57.9 1.0
OE1 B:GLU208 2.1 46.0 1.0
NE2 B:HIS129 2.2 52.4 1.0
NE2 B:HIS160 2.2 53.7 1.0
CD B:GLU133 2.7 57.9 1.0
OE1 B:GLU133 2.9 52.8 1.0
CE1 B:HIS129 3.1 53.1 1.0
FE B:FE21221 3.1 46.6 1.0
CE1 B:HIS160 3.1 51.9 1.0
CD B:GLU208 3.2 47.9 1.0
CD2 B:HIS160 3.2 49.9 1.0
CD2 B:HIS129 3.3 52.0 1.0
OE2 B:GLU208 3.6 48.0 1.0
CG B:GLU133 4.1 54.7 1.0
ND1 B:HIS129 4.2 52.0 1.0
ND1 B:HIS160 4.3 52.1 1.0
NE2 B:HIS204 4.3 44.4 1.0
CG B:HIS160 4.4 50.6 1.0
CG B:HIS129 4.4 51.3 1.0
CD1 B:ILE205 4.4 61.4 1.0
CG B:GLU208 4.5 49.1 1.0
CZ B:PHE213 4.6 54.2 1.0
CE1 B:HIS204 4.7 43.9 1.0
CB B:GLU208 4.8 49.4 1.0
CB B:MSE156 4.8 58.3 1.0

Reference:

F.-C.Lo, C.-C.Hsieh, M.Maestre-Reyna, C.-Y.Chen, T.-P.Ko, Y.-C.Horng, Y.-C.Lai, Y.-W.Chiang, C.-M.Chou, C.-H.Chiang, W.-N.Huang, W.-F.Liaw. Crystal Structure of the Repair of Iron Centers Protein Ytfe and Its Interaction with No Chemistry V. 22 9768 2016.
ISSN: ISSN 0947-6539
PubMed: 27246459
DOI: 10.1002/CHEM.201600990
Page generated: Tue Aug 6 01:00:47 2024

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