Sodium in PDB 9ewe: Dna Polymerase Lambda I493K, E529D, CA2+ Ground State Ternary Complex

All present enzymatic activity of Dna Polymerase Lambda I493K, E529D, CA2+ Ground State Ternary Complex:
2.7.7.7;

The structure of Dna Polymerase Lambda I493K, E529D, CA2+ Ground State Ternary Complex, PDB code: 9ewe was solved by A.Nourisson, A.Haouz, S.Missoury, M.Delarue, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	41.55 / 3.04
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	55.801, 62.251, 138.114, 90, 90, 90
R / Rfree (%)	24.2 / 27.9

The structure of Dna Polymerase Lambda I493K, E529D, CA2+ Ground State Ternary Complex also contains other interesting chemical elements:

Calcium

(Ca)

1 atom

The binding sites of Sodium atom in the Dna Polymerase Lambda I493K, E529D, CA2+ Ground State Ternary Complex (pdb code 9ewe). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Dna Polymerase Lambda I493K, E529D, CA2+ Ground State Ternary Complex, PDB code: 9ewe:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Dna Polymerase Lambda I493K, E529D, CA2+ Ground State Ternary Complex


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Dna Polymerase Lambda I493K, E529D, CA2+ Ground State Ternary Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Na602 b:13.0 occ:1.00 OP1 P:DA5 2.5 32.3 1.0 O A:SER339 2.6 24.8 1.0 O A:ILE341 3.3 24.6 1.0 O A:HOH709 3.5 12.8 1.0 P P:DA5 3.6 30.8 1.0 C A:SER339 3.8 25.2 1.0 O A:ALA344 3.8 23.1 1.0 C A:ILE341 3.8 24.5 1.0 O A:ASN340 3.8 24.1 1.0 C A:ASN340 3.9 24.3 1.0 CA A:TRP342 3.9 24.5 1.0 OP2 P:DA5 4.1 30.4 1.0 CA A:ASN340 4.1 25.7 1.0 N A:TRP342 4.1 24.7 1.0 O5' P:DA5 4.1 33.0 1.0 N A:ILE341 4.4 24.5 1.0 N A:ASN340 4.4 25.7 1.0 N A:GLY343 4.5 24.4 1.0 C A:TRP342 4.7 24.8 1.0 CA A:ILE341 4.8 25.0 1.0 C5' P:DA5 4.8 31.5 1.0 C A:ALA344 4.9 23.4 1.0 CB A:TRP342 4.9 24.8 1.0 CA A:SER339 4.9 25.2 1.0 N A:ALA344 5.0 24.3 1.0 O3' P:DT4 5.0 29.7 1.0

Sodium binding site 2 out of 2 in the Dna Polymerase Lambda I493K, E529D, CA2+ Ground State Ternary Complex


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Dna Polymerase Lambda I493K, E529D, CA2+ Ground State Ternary Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Na603 b:35.1 occ:1.00 O A:CYS300 3.2 66.7 1.0 OP1 D:DC3 3.3 72.3 1.0 OP2 D:DC3 4.0 72.4 1.0 O A:ILE302 4.0 61.1 1.0 P D:DC3 4.1 69.3 1.0 O A:ILE305 4.3 71.0 1.0 C A:CYS300 4.4 66.1 1.0 C A:ILE302 4.7 67.8 1.0 O5' D:DC3 4.7 59.7 1.0 C A:SER301 4.8 73.2 1.0 O A:SER301 4.8 75.2 1.0 CA A:PRO303 4.9 68.9 1.0 CA A:SER301 5.0 70.3 1.0

A.Nourisson, A.Haouz, S.Missoury, M.Delarue. Dna Polymerase Lambda I493K, E529D, Dctp:at CA2+ Ground State Ternary Complex To Be Published.