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Sodium in PDB 6o93: D-Alanyl Transferase Dltd From Enterococcus Faecalis

Protein crystallography data

The structure of D-Alanyl Transferase Dltd From Enterococcus Faecalis, PDB code: 6o93 was solved by M.Shakhashiro, K.V.Korotkov, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 45.96 / 2.18
Space group P 65 2 2
Cell size a, b, c (Å), α, β, γ (°) 102.750, 102.750, 205.750, 90.00, 90.00, 120.00
R / Rfree (%) 18.3 / 21.9

Other elements in 6o93:

The structure of D-Alanyl Transferase Dltd From Enterococcus Faecalis also contains other interesting chemical elements:

Chlorine (Cl) 3 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the D-Alanyl Transferase Dltd From Enterococcus Faecalis (pdb code 6o93). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the D-Alanyl Transferase Dltd From Enterococcus Faecalis, PDB code: 6o93:

Sodium binding site 1 out of 1 in 6o93

Go back to Sodium Binding Sites List in 6o93
Sodium binding site 1 out of 1 in the D-Alanyl Transferase Dltd From Enterococcus Faecalis


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of D-Alanyl Transferase Dltd From Enterococcus Faecalis within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na510

b:45.5
occ:1.00
HG A:SER72 2.2 24.0 1.0
OE1 A:GLU74 2.5 22.1 1.0
OG A:SER72 2.8 19.9 1.0
O4 A:PO4505 2.9 52.0 1.0
HG A:SER73 2.9 25.6 1.0
OG A:SER130 2.9 26.4 1.0
O A:HOH748 3.2 33.0 1.0
O2 A:PO4505 3.2 53.6 1.0
H A:GLU74 3.2 23.3 1.0
H A:SER73 3.4 20.7 1.0
HG A:SER130 3.4 31.7 1.0
HB3 A:GLU74 3.5 24.8 1.0
OG A:SER73 3.6 21.3 1.0
O A:HOH677 3.6 22.0 1.0
P A:PO4505 3.7 52.6 1.0
CD A:GLU74 3.7 21.2 1.0
HB3 A:SER130 3.7 29.9 1.0
HD2 A:HIS375 3.7 36.8 1.0
CB A:SER130 3.9 24.9 1.0
N A:SER73 3.9 17.2 1.0
N A:GLU74 4.0 19.4 1.0
CB A:SER72 4.0 18.0 1.0
HB2 A:SER72 4.0 21.6 1.0
HE2 A:HIS375 4.1 37.5 1.0
HE1 A:TRP133 4.1 23.4 1.0
HB2 A:SER130 4.2 29.9 1.0
CD2 A:HIS375 4.2 30.6 1.0
O A:HOH622 4.3 14.1 1.0
CB A:GLU74 4.3 20.6 1.0
HD12 A:ILE374 4.4 36.4 1.0
NE2 A:HIS375 4.4 31.2 1.0
OE2 A:GLU74 4.5 20.5 1.0
CG A:GLU74 4.5 20.8 1.0
C A:SER72 4.6 17.9 1.0
CB A:SER73 4.6 20.0 1.0
CA A:SER73 4.6 18.2 1.0
O1 A:PO4505 4.7 52.0 1.0
HB3 A:SER72 4.7 21.6 1.0
H A:SER72 4.7 20.4 1.0
O3 A:PO4505 4.7 53.2 1.0
C A:SER73 4.7 18.9 1.0
NE1 A:TRP133 4.7 19.5 1.0
CA A:GLU74 4.7 19.9 1.0
CA A:SER72 4.8 17.4 1.0
HG3 A:GLU74 4.8 25.0 1.0
HG13 A:ILE374 4.9 35.4 1.0
OE1 A:GLN132 4.9 27.1 1.0
HD11 A:ILE374 4.9 36.4 1.0
O A:HOH714 4.9 19.2 1.0
HB3 A:SER73 5.0 24.1 1.0

Reference:

M.Shakhashiro, Z.A.Williamson, N.Korotkova, K.V.Korotkov. D-Alanyl Transferase Dltd From Enterococcus Faecalis To Be Published.
Page generated: Tue Dec 15 12:41:11 2020

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