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Magnesium in PDB 1tk6: Iron-Oxo Clusters Biomineralizing on Protein Surfaces. Structural Analysis of H.Salinarum Dpsa in Its Low and High Iron States

Protein crystallography data

The structure of Iron-Oxo Clusters Biomineralizing on Protein Surfaces. Structural Analysis of H.Salinarum Dpsa in Its Low and High Iron States, PDB code: 1tk6 was solved by K.Zeth, S.Offermann, L.O.Essen, D.Oesterhelt, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 158.11 / 2.20
Space group P 3 2 1
Cell size a, b, c (Å), α, β, γ (°) 91.110, 91.110, 150.040, 90.00, 90.00, 120.00
R / Rfree (%) 17.2 / 23.5

Other elements in 1tk6:

The structure of Iron-Oxo Clusters Biomineralizing on Protein Surfaces. Structural Analysis of H.Salinarum Dpsa in Its Low and High Iron States also contains other interesting chemical elements:

Iron (Fe) 6 atoms
Sodium (Na) 2 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Iron-Oxo Clusters Biomineralizing on Protein Surfaces. Structural Analysis of H.Salinarum Dpsa in Its Low and High Iron States (pdb code 1tk6). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Iron-Oxo Clusters Biomineralizing on Protein Surfaces. Structural Analysis of H.Salinarum Dpsa in Its Low and High Iron States, PDB code: 1tk6:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in 1tk6

Go back to Magnesium Binding Sites List in 1tk6
Magnesium binding site 1 out of 4 in the Iron-Oxo Clusters Biomineralizing on Protein Surfaces. Structural Analysis of H.Salinarum Dpsa in Its Low and High Iron States


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Iron-Oxo Clusters Biomineralizing on Protein Surfaces. Structural Analysis of H.Salinarum Dpsa in Its Low and High Iron States within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg1308

b:46.7
occ:0.50
OE1 D:GLU56 2.1 32.9 1.0
NE2 A:HIS168 2.3 32.0 1.0
OE1 C:GLN86 2.7 35.8 1.0
CD D:GLU56 3.0 28.1 1.0
CD2 A:HIS168 3.1 31.0 1.0
CE1 A:HIS168 3.1 29.9 1.0
CD C:GLN86 3.5 28.6 1.0
CG D:GLU56 3.7 24.6 1.0
NE2 C:GLN86 3.7 28.3 1.0
OE2 D:GLU56 3.9 32.5 1.0
ND1 A:HIS168 4.1 26.0 1.0
CG A:HIS168 4.1 29.5 1.0
O C:GLN86 4.3 23.9 1.0
OE2 A:GLU171 4.4 35.0 1.0
O C:HOH1374 4.7 63.5 1.0
OE2 C:GLU15 4.7 59.0 1.0
NE2 A:HIS164 4.8 34.2 1.0
CG C:GLN86 4.9 26.1 1.0
CD C:GLU15 5.0 59.8 1.0
CG A:GLU171 5.0 28.9 1.0

Magnesium binding site 2 out of 4 in 1tk6

Go back to Magnesium Binding Sites List in 1tk6
Magnesium binding site 2 out of 4 in the Iron-Oxo Clusters Biomineralizing on Protein Surfaces. Structural Analysis of H.Salinarum Dpsa in Its Low and High Iron States


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Iron-Oxo Clusters Biomineralizing on Protein Surfaces. Structural Analysis of H.Salinarum Dpsa in Its Low and High Iron States within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg1309

b:36.4
occ:0.50
NE2 B:HIS168 2.5 33.0 1.0
CD2 B:HIS168 3.4 30.8 1.0
CE1 B:HIS168 3.6 33.9 1.0
CG B:HIS168 4.6 29.1 1.0
NE2 B:HIS164 4.6 34.2 1.0
ND1 B:HIS168 4.6 23.4 1.0
OE1 B:GLU167 4.7 49.0 1.0

Magnesium binding site 3 out of 4 in 1tk6

Go back to Magnesium Binding Sites List in 1tk6
Magnesium binding site 3 out of 4 in the Iron-Oxo Clusters Biomineralizing on Protein Surfaces. Structural Analysis of H.Salinarum Dpsa in Its Low and High Iron States


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Iron-Oxo Clusters Biomineralizing on Protein Surfaces. Structural Analysis of H.Salinarum Dpsa in Its Low and High Iron States within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg1310

b:27.7
occ:0.50
O C:HOH1358 2.6 58.3 1.0
NE2 C:HIS168 3.0 38.3 1.0
O C:HOH1324 3.6 34.9 1.0
CD2 C:HIS168 3.8 29.7 1.0
NE2 C:HIS164 3.8 30.7 1.0
CD2 C:HIS164 3.9 29.5 1.0
CE1 C:HIS168 4.0 34.3 1.0
OE1 C:GLU167 4.1 43.9 1.0
CG C:HIS168 4.9 27.7 1.0

Magnesium binding site 4 out of 4 in 1tk6

Go back to Magnesium Binding Sites List in 1tk6
Magnesium binding site 4 out of 4 in the Iron-Oxo Clusters Biomineralizing on Protein Surfaces. Structural Analysis of H.Salinarum Dpsa in Its Low and High Iron States


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Iron-Oxo Clusters Biomineralizing on Protein Surfaces. Structural Analysis of H.Salinarum Dpsa in Its Low and High Iron States within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg1307

b:29.9
occ:0.50
NE2 D:HIS168 2.3 33.5 1.0
O D:HOH1368 2.4 32.0 1.0
CD2 D:HIS168 3.2 35.2 1.0
CE1 D:HIS168 3.3 34.8 1.0
OE1 D:GLU167 4.3 46.8 1.0
CG D:HIS168 4.3 29.4 1.0
ND1 D:HIS168 4.4 25.6 1.0
OE2 D:GLU171 4.5 37.6 1.0
O D:HOH1387 4.7 64.2 1.0
NE2 D:HIS164 4.7 37.2 1.0

Reference:

K.Zeth, S.Offermann, L.O.Essen, D.Oesterhelt. Iron-Oxo Clusters Biomineralizing on Protein Surfaces: Structural Analysis of Halobacterium Salinarum Dpsa in Its Low- and High-Iron States. Proc.Natl.Acad.Sci.Usa V. 101 13780 2004.
ISSN: ISSN 0027-8424
PubMed: 15365182
DOI: 10.1073/PNAS.0401821101
Page generated: Mon Dec 14 06:51:32 2020

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