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Sodium in PDB 3cx3: Crystal Structure Analysis of the Streptococcus Pneumoniae Adcaii Protein

Protein crystallography data

The structure of Crystal Structure Analysis of the Streptococcus Pneumoniae Adcaii Protein, PDB code: 3cx3 was solved by E.Loisel, C.Durmort, L.Jacquamet, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 44.90 / 2.40
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 55.760, 63.260, 151.660, 90.00, 90.00, 90.00
R / Rfree (%) 22.5 / 29.5

Other elements in 3cx3:

The structure of Crystal Structure Analysis of the Streptococcus Pneumoniae Adcaii Protein also contains other interesting chemical elements:

Zinc (Zn) 2 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure Analysis of the Streptococcus Pneumoniae Adcaii Protein (pdb code 3cx3). 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 Analysis of the Streptococcus Pneumoniae Adcaii Protein, PDB code: 3cx3:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in 3cx3

Go back to Sodium Binding Sites List in 3cx3
Sodium binding site 1 out of 2 in the Crystal Structure Analysis of the Streptococcus Pneumoniae Adcaii Protein


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure Analysis of the Streptococcus Pneumoniae Adcaii Protein within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na312

b:50.7
occ:1.00
CG2 A:VAL114 3.5 45.9 1.0
N A:VAL114 3.8 48.1 1.0
CB A:VAL114 3.8 46.6 1.0
O A:VAL112 4.0 56.2 1.0
CA A:VAL114 4.3 46.5 1.0
CG A:PRO105 4.3 69.0 1.0
O A:VAL114 4.5 45.9 1.0
C A:LYS113 4.8 50.4 1.0
CD A:PRO105 4.8 69.4 1.0
CA A:LYS113 4.8 52.3 1.0
C A:VAL114 4.9 45.6 1.0
C A:VAL112 5.0 56.1 1.0

Sodium binding site 2 out of 2 in 3cx3

Go back to Sodium Binding Sites List in 3cx3
Sodium binding site 2 out of 2 in the Crystal Structure Analysis of the Streptococcus Pneumoniae Adcaii Protein


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Crystal Structure Analysis of the Streptococcus Pneumoniae Adcaii Protein within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na313

b:54.2
occ:1.00
OG1 A:THR176 3.0 56.7 1.0
CD2 A:HIS173 3.6 63.4 1.0
CA A:HIS173 3.7 60.1 1.0
CG A:HIS173 4.0 62.2 1.0
CB A:HIS173 4.0 60.4 1.0
CB A:THR176 4.1 56.5 1.0
N A:THR176 4.3 56.5 1.0
C A:HIS173 4.3 59.1 1.0
O A:GLU172 4.3 62.6 1.0
O A:HIS173 4.4 58.5 1.0
CB A:GLU175 4.5 57.6 1.0
NE2 A:HIS173 4.5 63.1 1.0
N A:HIS173 4.6 61.3 1.0
C A:GLU172 4.8 62.0 1.0
CA A:THR176 4.8 56.3 1.0
N A:GLU175 5.0 57.3 1.0
ND1 A:HIS173 5.0 63.7 1.0

Reference:

E.Loisel, L.Jacquamet, L.Serre, C.Bauvois, J.L.Ferrer, T.Vernet, A.M.Di Guilmi, C.Durmort. Adcaii, A New Pneumococcal Zn-Binding Protein Homologous with Abc Transporters: Biochemical and Structural Analysis. J.Mol.Biol. V. 381 594 2008.
ISSN: ISSN 0022-2836
PubMed: 18632116
DOI: 10.1016/J.JMB.2008.05.068
Page generated: Tue Dec 15 06:08:04 2020

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