Sodium in PDB 7vxt: Crystal Structure of A Selenomethionine Labelled Hypothetical Protein

The structure of Crystal Structure of A Selenomethionine Labelled Hypothetical Protein, PDB code: 7vxt was solved by S.Shaibullah, M.Mohd-Sharif, K.L.Ho, M.Firdaus-Raih, S.Nathan, R.Mohamed, A.K.Teh, J.Waterman, C.L.Ng, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	28.97 / 1.88
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	85.726, 115.891, 46.812, 90, 90, 90
R / Rfree (%)	14.8 / 17.8

The binding sites of Sodium atom in the Crystal Structure of A Selenomethionine Labelled Hypothetical Protein (pdb code 7vxt). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Crystal Structure of A Selenomethionine Labelled Hypothetical Protein, PDB code: 7vxt:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Crystal Structure of A Selenomethionine Labelled Hypothetical Protein


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 Selenomethionine Labelled Hypothetical Protein within 5.0Å range: probe atom residue distance (Å) B Occ A:Na103 b:51.3 occ:1.00 OE2 A:GLU65 2.2 50.8 0.5 O A:ILE42 2.7 31.5 1.0 OE1 A:GLU65 3.1 25.3 0.5 CD A:GLU65 3.4 43.0 0.5 CA A:GLY3 3.4 28.9 1.0 OE2 A:GLU65 3.6 23.1 0.5 CD A:GLU65 3.7 24.2 0.5 C A:ILE42 3.7 32.8 1.0 C2 A:BME102 3.8 95.5 1.0 O A:MSE40 3.8 28.9 1.0 CD2 A:LEU5 3.8 19.8 0.5 N A:ILE42 3.9 29.7 1.0 CD1 A:LEU5 3.9 22.3 0.5 OE1 A:GLU65 4.0 47.6 0.5 O1 A:BME102 4.0 81.8 1.0 CG A:LEU5 4.1 20.6 0.5 CG A:LEU5 4.1 22.3 0.5 CD A:PRO44 4.2 33.2 1.0 C A:GLY3 4.2 27.4 1.0 CD1 A:LEU5 4.3 20.3 0.5 CD2 A:LEU5 4.4 21.9 0.5 CA A:ILE42 4.4 30.2 0.5 CA A:ILE42 4.4 32.1 0.5 N A:ASN4 4.5 24.4 1.0 CG A:GLU65 4.5 33.0 0.5 N A:VAL43 4.6 34.1 1.0 C1 A:BME102 4.6 89.1 1.0 N A:GLY3 4.6 35.3 1.0 CG A:PRO44 4.7 31.2 1.0 CA A:VAL43 4.7 37.8 1.0 CA A:ASN41 4.8 28.3 1.0 C A:ASN41 4.8 29.6 1.0 N A:PRO44 4.8 31.1 1.0 C A:MSE40 4.9 29.9 1.0 CG2 A:ILE42 5.0 27.5 0.5

Sodium binding site 2 out of 2 in the Crystal Structure of A Selenomethionine Labelled Hypothetical Protein


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 A Selenomethionine Labelled Hypothetical Protein within 5.0Å range: probe atom residue distance (Å) B Occ B:Na104 b:40.5 occ:1.00 OD1 B:ASP50 2.5 49.2 1.0 O B:HOH258 3.1 42.2 1.0 CG B:ASP50 3.6 42.1 1.0 OD2 B:ASP50 4.0 43.8 1.0 NH2 B:ARG54 4.1 33.3 1.0 CD B:ARG54 4.2 36.3 1.0 CZ B:ARG54 4.7 36.0 1.0 NE B:ARG54 4.8 38.0 1.0 CB B:ASP50 4.8 35.3 1.0

S.Shaibullah, M.Mohd-Sharif, K.L.Ho, M.Firdaus-Raih, S.Nathan, R.Mohamed, A.K.Teh, J.Waterman, C.L.Ng. Crystal Structure of A Hypothetical Protein To Be Published.