Sodium in PDB 4z0n: Crystal Structure of A Periplasmic Solute Binding Protein (IPR025997) From Streptobacillus Moniliformis Dsm-12112 (SMON_0317, Target Efi- 511281) with Bound D-Galactose

The structure of Crystal Structure of A Periplasmic Solute Binding Protein (IPR025997) From Streptobacillus Moniliformis Dsm-12112 (SMON_0317, Target Efi- 511281) with Bound D-Galactose, PDB code: 4z0n was solved by U.Yadava, M.W.Vetting, N.F.Al Obaidi, R.Toro, L.L.Morisco, J.Benach, J.Koss, S.R.Wasserman, J.D.Attonito, A.Scott Glenn, S.Chamala, S.Chowdhury, J.Lafleur, J.Love, R.D.Seidel, K.L.Whalen, J.A.Gerlt, S.C.Almo, Enzyme Function Initiative (Efi), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	24.12 / 1.26
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	116.396, 44.011, 62.037, 90.00, 104.32, 90.00
R / Rfree (%)	13.9 / 16.5

The structure of Crystal Structure of A Periplasmic Solute Binding Protein (IPR025997) From Streptobacillus Moniliformis Dsm-12112 (SMON_0317, Target Efi- 511281) with Bound D-Galactose also contains other interesting chemical elements:

Calcium

(Ca)

1 atom

The binding sites of Sodium atom in the Crystal Structure of A Periplasmic Solute Binding Protein (IPR025997) From Streptobacillus Moniliformis Dsm-12112 (SMON_0317, Target Efi- 511281) with Bound D-Galactose (pdb code 4z0n). 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 A Periplasmic Solute Binding Protein (IPR025997) From Streptobacillus Moniliformis Dsm-12112 (SMON_0317, Target Efi- 511281) with Bound D-Galactose, PDB code: 4z0n:

Sodium binding site 1 out of 1 in the Crystal Structure of A Periplasmic Solute Binding Protein (IPR025997) From Streptobacillus Moniliformis Dsm-12112 (SMON_0317, Target Efi- 511281) with Bound D-Galactose


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 A Periplasmic Solute Binding Protein (IPR025997) From Streptobacillus Moniliformis Dsm-12112 (SMON_0317, Target Efi- 511281) with Bound D-Galactose within 5.0Å range: probe atom residue distance (Å) B Occ A:Na409 b:18.7 occ:1.00 O A:ASN91 2.7 13.1 1.0 OG1 A:THR32 2.7 13.2 1.0 OG A:SER66 2.8 12.1 1.0 C A:TYR33 3.0 12.2 1.0 CB A:THR32 3.1 11.8 1.0 N A:TYR33 3.1 11.1 1.0 O A:TYR33 3.2 13.0 1.0 N A:TYR34 3.3 11.5 1.0 C A:THR32 3.3 11.9 1.0 CA A:TYR33 3.5 11.2 1.0 CA A:TYR34 3.6 11.6 1.0 O A:THR32 3.7 13.6 1.0 CB A:SER66 3.7 12.4 1.0 C A:ASN91 3.7 12.3 1.0 CA A:THR32 3.8 11.9 1.0 CD1 A:LEU73 3.8 14.1 1.0 CB A:ASN91 3.9 11.5 1.0 CD2 A:LEU73 4.1 14.6 1.0 N A:ASN91 4.2 11.7 1.0 CA A:ASN91 4.2 11.0 1.0 CG A:LEU73 4.4 12.7 1.0 CB A:TYR34 4.4 12.4 1.0 CG2 A:THR32 4.5 13.9 1.0 CG2 A:VAL93 4.5 14.7 1.0 OD1 A:ASN91 4.6 12.2 1.0 C A:TYR34 4.7 12.9 1.0 N A:SER66 4.7 12.1 1.0 CG A:ASN91 4.7 11.7 1.0 CB A:LEU73 4.8 13.7 1.0 CA A:SER66 4.8 11.6 1.0 N A:LEU92 4.9 11.8 1.0 CB A:TYR33 4.9 11.7 1.0 C A:LEU92 5.0 12.4 1.0

U.Yadava, M.W.Vetting, N.F.Al Obaidi, R.Toro, L.L.Morisco, J.Benach, J.Koss, S.R.Wasserman, J.D.Attonito, A.Scott Glenn, S.Chamala, S.Chowdhury, J.Lafleur, J.Love, R.D.Seidel, K.L.Whalen, J.A.Gerlt, S.C.Almo, Enzyme Function Initiative (Efi). Crystal Structure of A Periplasmic Solute Binding Protein (IPR025997) From Streptobacillus Moniliformis Dsm-12112 (SMON_0317, Target Efi-511281) with Bound D-Galactose To Be Published.