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Sodium in PDB 1moj: Crystal Structure of An Archaeal Dps-Homologue From Halobacterium Salinarum

Protein crystallography data

The structure of Crystal Structure of An Archaeal Dps-Homologue From Halobacterium Salinarum, PDB code: 1moj 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) 29.88 / 1.90
Space group P 3 2 1
Cell size a, b, c (Å), α, β, γ (°) 90.747, 90.747, 149.410, 90.00, 90.00, 120.00
R / Rfree (%) 14.7 / 18.2

Other elements in 1moj:

The structure of Crystal Structure of An Archaeal Dps-Homologue From Halobacterium Salinarum also contains other interesting chemical elements:

Magnesium (Mg) 4 atoms
Iron (Fe) 6 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of An Archaeal Dps-Homologue From Halobacterium Salinarum (pdb code 1moj). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Crystal Structure of An Archaeal Dps-Homologue From Halobacterium Salinarum, PDB code: 1moj:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in 1moj

Go back to Sodium Binding Sites List in 1moj
Sodium binding site 1 out of 2 in the Crystal Structure of An Archaeal Dps-Homologue From Halobacterium Salinarum


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of An Archaeal Dps-Homologue From Halobacterium Salinarum within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na311

b:21.4
occ:1.00
OE1 A:GLU59 3.0 27.0 1.0
OE1 D:GLU59 3.2 22.5 1.0
CG2 D:VAL176 4.0 21.0 1.0
CG2 A:VAL176 4.1 18.9 1.0
CD A:GLU59 4.2 26.6 1.0
CB A:ALA58 4.2 16.5 1.0
CB D:ALA58 4.2 14.8 1.0
CD D:GLU59 4.4 23.6 1.0
OG1 A:THR174 4.7 15.0 1.0
OG1 D:THR174 4.7 15.6 1.0
CB A:GLU59 4.7 20.5 1.0
CB D:GLU59 4.8 17.8 1.0
CG A:GLU59 4.9 26.9 1.0
C A:ALA58 5.0 17.1 1.0

Sodium binding site 2 out of 2 in 1moj

Go back to Sodium Binding Sites List in 1moj
Sodium binding site 2 out of 2 in the Crystal Structure of An Archaeal Dps-Homologue From Halobacterium Salinarum


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Crystal Structure of An Archaeal Dps-Homologue From Halobacterium Salinarum within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Na312

b:20.5
occ:0.50
OE1 C:GLU59 3.1 24.9 1.0
CG2 C:VAL176 3.9 14.1 1.0
CB C:ALA58 4.3 17.8 1.0
CD C:GLU59 4.3 22.9 1.0
OG1 C:THR174 4.6 15.7 1.0
CB C:GLU59 4.9 19.6 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: Tue Dec 15 05:30:33 2020

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