Sodium in PDB 3dfh: Crystal Structure of Putative Mandelate Racemase / Muconate Lactonizing Enzyme From Vibrionales Bacterium Swat-3

The structure of Crystal Structure of Putative Mandelate Racemase / Muconate Lactonizing Enzyme From Vibrionales Bacterium Swat-3, PDB code: 3dfh was solved by V.N.Malashkevich, R.Toro, S.R.Wasserman, A.J.Meyer, J.M.Sauder, S.K.Burley, S.C.Almo, New York Sgx Research Center For Structuralgenomics (Nysgxrc), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	41.59 / 2.20
Space group	I 4 2 2
Cell size a, b, c (Å), α, β, γ (°)	121.836, 121.836, 319.347, 90.00, 90.00, 90.00
R / Rfree (%)	17.3 / 23.4

The binding sites of Sodium atom in the Crystal Structure of Putative Mandelate Racemase / Muconate Lactonizing Enzyme From Vibrionales Bacterium Swat-3 (pdb code 3dfh). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 3 binding sites of Sodium where determined in the Crystal Structure of Putative Mandelate Racemase / Muconate Lactonizing Enzyme From Vibrionales Bacterium Swat-3, PDB code: 3dfh:
Jump to Sodium binding site number: 1; 2; 3;

Sodium binding site 1 out of 3 in the Crystal Structure of Putative Mandelate Racemase / Muconate Lactonizing Enzyme From Vibrionales Bacterium Swat-3


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 Putative Mandelate Racemase / Muconate Lactonizing Enzyme From Vibrionales Bacterium Swat-3 within 5.0Å range: probe atom residue distance (Å) B Occ A:Na502 b:19.1 occ:0.25 O A:SER249 2.7 24.8 1.0 O A:HOH541 2.7 25.6 0.2 C A:SER249 3.8 23.5 1.0 CB A:SER249 4.4 20.9 1.0 CA A:SER249 4.5 22.0 1.0 N A:GLN250 4.7 22.4 1.0 CA A:GLN250 4.8 22.1 1.0 OG A:SER249 4.8 43.6 1.0 CG A:GLN250 5.0 29.4 1.0

Sodium binding site 2 out of 3 in the Crystal Structure of Putative Mandelate Racemase / Muconate Lactonizing Enzyme From Vibrionales Bacterium Swat-3


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 Putative Mandelate Racemase / Muconate Lactonizing Enzyme From Vibrionales Bacterium Swat-3 within 5.0Å range: probe atom residue distance (Å) B Occ B:Na503 b:37.8 occ:0.25 O B:HOH659 2.4 25.8 0.2 O B:SER249 2.5 25.9 1.0 C B:SER249 3.7 24.2 1.0 CB B:SER249 4.4 21.8 1.0 CA B:SER249 4.5 22.5 1.0 N B:GLN250 4.6 22.7 1.0 CA B:GLN250 4.6 23.8 1.0 OG B:SER249 4.7 29.6 1.0 CG B:GLN250 4.9 27.7 1.0

Sodium binding site 3 out of 3 in the Crystal Structure of Putative Mandelate Racemase / Muconate Lactonizing Enzyme From Vibrionales Bacterium Swat-3


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of Crystal Structure of Putative Mandelate Racemase / Muconate Lactonizing Enzyme From Vibrionales Bacterium Swat-3 within 5.0Å range: probe atom residue distance (Å) B Occ C:Na501 b:16.8 occ:0.25 O C:HOH626 2.1 3.8 0.2 O C:SER249 2.5 20.1 1.0 C C:SER249 3.7 21.1 1.0 CA C:GLN250 4.4 20.8 1.0 N C:GLN250 4.5 21.2 1.0 CG C:GLN250 4.6 22.5 1.0 OG C:SER249 4.6 31.1 1.0 CB C:SER249 4.7 20.7 1.0 CA C:SER249 4.7 19.7 1.0

V.N.Malashkevich, R.Toro, S.R.Wasserman, A.J.Meyer, J.M.Sauder, S.K.Burley, S.C.Almo. Crystal Structure of Putative Mandelate Racemase / Muconate Lactonizing Enzyme From Vibrionales Bacterium Swat-3 To Be Published.