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Magnesium in PDB 3ogh: Crystal Structure of Ycie Protein From E. Coli CFT073, A Member of Ferritine-Like Superfamily of Diiron-Containing Four-Helix-Bundle Proteins

Protein crystallography data

The structure of Crystal Structure of Ycie Protein From E. Coli CFT073, A Member of Ferritine-Like Superfamily of Diiron-Containing Four-Helix-Bundle Proteins, PDB code: 3ogh was solved by B.Nocek, L.Bigelow, J.Bearden, A.Joachimiak, Midwest Center Forstructural Genomics (Mcsg), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 40.00 / 1.65
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 30.148, 90.295, 58.132, 90.00, 103.51, 90.00
R / Rfree (%) 16.6 / 21.3

Other elements in 3ogh:

The structure of Crystal Structure of Ycie Protein From E. Coli CFT073, A Member of Ferritine-Like Superfamily of Diiron-Containing Four-Helix-Bundle Proteins also contains other interesting chemical elements:

Iron (Fe) 2 atoms
Chlorine (Cl) 1 atom

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of Ycie Protein From E. Coli CFT073, A Member of Ferritine-Like Superfamily of Diiron-Containing Four-Helix-Bundle Proteins (pdb code 3ogh). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Crystal Structure of Ycie Protein From E. Coli CFT073, A Member of Ferritine-Like Superfamily of Diiron-Containing Four-Helix-Bundle Proteins, PDB code: 3ogh:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 3ogh

Go back to Magnesium Binding Sites List in 3ogh
Magnesium binding site 1 out of 2 in the Crystal Structure of Ycie Protein From E. Coli CFT073, A Member of Ferritine-Like Superfamily of Diiron-Containing Four-Helix-Bundle Proteins


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of Ycie Protein From E. Coli CFT073, A Member of Ferritine-Like Superfamily of Diiron-Containing Four-Helix-Bundle Proteins within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg501

b:7.8
occ:0.90
OE2 B:GLU107 1.9 21.1 1.0
OE1 B:GLN52 2.0 20.8 1.0
OE2 B:GLU137 2.0 20.7 1.0
OE2 B:GLU18 2.0 19.7 1.0
OE1 B:GLU18 2.1 19.8 1.0
O B:HOH173 2.1 22.5 1.0
CD B:GLU18 2.4 19.6 1.0
CD B:GLU107 3.0 20.9 1.0
CD B:GLU137 3.1 20.1 1.0
CD B:GLN52 3.1 20.9 1.0
OE1 B:GLU107 3.3 20.9 1.0
OE1 B:GLU137 3.4 21.1 1.0
FE B:FE401 3.5 11.2 0.8
NE2 B:GLN52 3.7 21.1 1.0
CG B:GLU18 3.9 19.4 1.0
OG1 B:THR49 4.3 20.7 1.0
CG B:GLU107 4.3 20.6 1.0
CG B:GLU137 4.4 19.8 1.0
CG B:GLN52 4.4 20.9 1.0
CG2 B:THR49 4.5 20.8 1.0
CB B:GLN52 4.6 20.8 1.0
CB B:ALA21 4.6 21.6 1.0
CE2 B:TYR111 4.6 20.2 1.0
OH B:TYR111 4.6 20.8 1.0
O B:HOH174 4.7 30.4 1.0
CB B:GLU107 4.8 20.3 1.0
CG2 B:ILE133 4.8 20.1 1.0
NE2 B:HIS45 4.8 21.1 1.0
CB B:GLU18 4.8 19.4 1.0
CB B:THR49 4.9 20.7 1.0
CA B:GLU18 5.0 19.3 1.0

Magnesium binding site 2 out of 2 in 3ogh

Go back to Magnesium Binding Sites List in 3ogh
Magnesium binding site 2 out of 2 in the Crystal Structure of Ycie Protein From E. Coli CFT073, A Member of Ferritine-Like Superfamily of Diiron-Containing Four-Helix-Bundle Proteins


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of Ycie Protein From E. Coli CFT073, A Member of Ferritine-Like Superfamily of Diiron-Containing Four-Helix-Bundle Proteins within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg501

b:18.2
occ:1.00
OE2 A:GLU107 2.0 26.3 1.0
OE1 A:GLN52 2.0 31.4 1.0
OE2 A:GLU137 2.0 28.1 1.0
O A:HOH169 2.0 25.8 1.0
OE2 A:GLU18 2.0 25.6 1.0
OE1 A:GLU18 2.1 28.6 1.0
CD A:GLU18 2.4 27.2 1.0
CD A:GLU107 2.9 24.0 1.0
CD A:GLU137 3.1 25.9 1.0
CD A:GLN52 3.1 30.6 1.0
OE1 A:GLU107 3.3 28.2 1.0
OE1 A:GLU137 3.4 29.2 1.0
FE A:FE401 3.5 21.5 0.8
NE2 A:GLN52 3.6 29.8 1.0
CG A:GLU18 4.0 27.0 1.0
OG1 A:THR49 4.2 29.4 1.0
CG A:GLU107 4.2 23.1 1.0
CG A:GLU137 4.4 24.5 1.0
CG A:GLN52 4.4 33.9 1.0
CG2 A:THR49 4.4 31.5 1.0
CE2 A:TYR111 4.6 23.6 1.0
CB A:GLN52 4.6 32.7 1.0
CB A:ALA21 4.6 28.5 1.0
OH A:TYR111 4.7 25.9 1.0
CB A:GLU107 4.7 22.0 1.0
O A:HOH170 4.7 31.9 1.0
CB A:GLU18 4.8 27.2 1.0
CB A:THR49 4.8 30.4 1.0
NE2 A:HIS45 4.8 30.1 1.0
CG2 A:ILE133 4.8 27.3 1.0
CA A:GLU18 5.0 28.0 1.0

Reference:

B.Nocek, L.Bigelow, J.Bearden, A.Joachimiak. Crystal Structure of Ycie Protein From E. Coli CFT073, A Member of Ferritine-Like Superfamily of Diiron-Containing Four-Helix-Bundle Proteins To Be Published.
Page generated: Mon Dec 14 08:33:41 2020

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