Sodium in PDB 4dxk: Crystal Structure of An Enolase (Mandelate Racemase Subgroup, Target Efi-502086) From Agrobacterium Tumefaciens, with A Succinimide Residue, Na and Phosphate

The structure of Crystal Structure of An Enolase (Mandelate Racemase Subgroup, Target Efi-502086) From Agrobacterium Tumefaciens, with A Succinimide Residue, Na and Phosphate, PDB code: 4dxk was solved by M.W.Vetting, J.T.Bouvier, R.Toro, R.Bhosle, N.F.Al Obaidi, L.L.Morisco, S.R.Wasserman, S.Sojitra, H.J.Imker, J.A.Gerlt, S.C.Almo, Enzyme Functioninitiative (Efi), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20.46 / 1.25
Space group	I 4 2 2
Cell size a, b, c (Å), α, β, γ (°)	111.540, 111.540, 130.650, 90.00, 90.00, 90.00
R / Rfree (%)	15.4 / 16.9

The binding sites of Sodium atom in the Crystal Structure of An Enolase (Mandelate Racemase Subgroup, Target Efi-502086) From Agrobacterium Tumefaciens, with A Succinimide Residue, Na and Phosphate (pdb code 4dxk). 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 Crystal Structure of An Enolase (Mandelate Racemase Subgroup, Target Efi-502086) From Agrobacterium Tumefaciens, with A Succinimide Residue, Na and Phosphate, PDB code: 4dxk:

Sodium binding site 1 out of 1 in the Crystal Structure of An Enolase (Mandelate Racemase Subgroup, Target Efi-502086) From Agrobacterium Tumefaciens, with A Succinimide Residue, Na and Phosphate


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 Enolase (Mandelate Racemase Subgroup, Target Efi-502086) From Agrobacterium Tumefaciens, with A Succinimide Residue, Na and Phosphate within 5.0Å range: probe atom residue distance (Å) B Occ A:Na502 b:12.8 occ:1.00 O1 A:PO4501 2.1 13.7 0.6 OE2 A:GLU216 2.2 24.5 1.0 OE2 A:GLU242 2.3 21.0 1.0 O A:HOH775 2.3 23.8 1.0 OE1 A:GLU268 2.3 17.1 1.0 O A:HOH875 2.4 23.3 1.0 CD A:GLU268 3.0 11.9 1.0 CD A:GLU216 3.2 18.4 1.0 P A:PO4501 3.2 15.4 0.6 OE2 A:GLU268 3.2 15.6 1.0 CD A:GLU242 3.3 13.7 1.0 O4 A:PO4501 3.5 16.0 0.6 OE1 A:GLU216 3.5 15.3 1.0 O A:HOH953 3.7 23.3 1.0 O2 A:PO4501 3.7 15.7 0.6 NZ A:LYS172 3.7 13.5 1.0 OE1 A:GLU242 4.1 11.0 1.0 CG A:GLU242 4.2 9.7 1.0 CG A:GLU268 4.2 11.3 1.0 O A:HOH615 4.3 10.8 1.0 CD2 A:HIS318 4.4 12.1 1.0 NE2 A:HIS318 4.4 11.8 1.0 CG A:GLU216 4.5 16.5 1.0 CD2 A:HIS218 4.5 12.8 1.0 O3 A:PO4501 4.5 16.7 0.6 CE A:LYS172 4.5 13.6 1.0 OD2 A:ASP243 4.5 12.7 1.0 NE2 A:HIS218 4.7 14.7 1.0

M.W.Vetting, J.T.Bouvier, R.Toro, R.Bhosle, N.F.Al Obaidi, L.L.Morisco, S.R.Wasserman, S.Sojitra, H.J.Imker, J.A.Gerlt, S.C.Almo, Enzyme Function Initiative (Efi). Crystal Structure of An Enolase (Mandelate Racemase Subgroup, Target Efi-502086) From Agrobacterium Tumefaciens, with A Succinimide Residue, Na and Phosphate To Be Published.