Zinc in PDB 5xwi: Crystal Structure of Spap, An Alkaline Phosphatase From Sphingomonas Showing Covalent Intermediate

All present enzymatic activity of Crystal Structure of Spap, An Alkaline Phosphatase From Sphingomonas Showing Covalent Intermediate:
3.1.3.1;

The structure of Crystal Structure of Spap, An Alkaline Phosphatase From Sphingomonas Showing Covalent Intermediate, PDB code: 5xwi was solved by S.C.Bihani, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	42.38 / 1.87
Space group	P 41 21 2
Cell size a, b, c (Å), α, β, γ (°)	87.600, 87.600, 168.030, 90.00, 90.00, 90.00
R / Rfree (%)	17.2 / 21

The structure of Crystal Structure of Spap, An Alkaline Phosphatase From Sphingomonas Showing Covalent Intermediate also contains other interesting chemical elements:

Calcium

(Ca)

1 atom

The binding sites of Zinc atom in the Crystal Structure of Spap, An Alkaline Phosphatase From Sphingomonas Showing Covalent Intermediate (pdb code 5xwi). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Crystal Structure of Spap, An Alkaline Phosphatase From Sphingomonas Showing Covalent Intermediate, PDB code: 5xwi:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Crystal Structure of Spap, An Alkaline Phosphatase From Sphingomonas Showing Covalent Intermediate


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of Spap, An Alkaline Phosphatase From Sphingomonas Showing Covalent Intermediate within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn601 b:23.3 occ:0.94 OD2 A:ASP345 2.0 19.7 1.0 OD1 A:ASP49 2.0 21.1 1.0 NE2 A:HIS346 2.0 22.8 1.0 OG1 A:TPO89 2.1 23.3 1.0 O3P A:TPO89 2.5 28.3 1.0 CG A:ASP49 2.8 25.4 1.0 CG A:ASP345 2.9 23.4 1.0 P A:TPO89 2.9 29.7 1.0 CD2 A:HIS346 3.0 24.3 1.0 CE1 A:HIS346 3.0 23.0 1.0 OD2 A:ASP49 3.1 25.1 1.0 OD1 A:ASP345 3.2 17.8 1.0 CB A:TPO89 3.2 26.3 1.0 CA A:TPO89 3.5 23.4 1.0 OD1 A:ASP300 3.7 20.4 1.0 CG2 A:TPO89 3.8 25.1 1.0 O2P A:TPO89 3.9 30.6 1.0 N A:TPO89 3.9 23.4 1.0 CG A:ASP300 4.0 23.6 1.0 ZN A:ZN602 4.0 23.8 1.0 ND1 A:HIS346 4.1 19.8 1.0 CG A:HIS346 4.1 19.1 1.0 NZ A:LYS171 4.1 27.4 1.0 O1P A:TPO89 4.1 28.8 1.0 CB A:ASP49 4.2 19.0 1.0 CE1 A:HIS491 4.2 26.2 1.0 CB A:ASP345 4.3 20.1 1.0 OD2 A:ASP300 4.3 23.6 1.0 NE2 A:HIS491 4.3 25.8 1.0 N A:GLN50 4.4 20.3 1.0 CA A:ASP49 4.5 21.1 1.0 CB A:ASP300 4.6 20.9 1.0 C A:GLU88 4.7 23.4 1.0 C A:ASP49 4.7 19.7 1.0 CE1 A:HIS93 4.8 23.3 1.0 C A:TPO89 4.9 21.3 1.0 O A:HOH702 4.9 39.2 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of Spap, An Alkaline Phosphatase From Sphingomonas Showing Covalent Intermediate


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of Spap, An Alkaline Phosphatase From Sphingomonas Showing Covalent Intermediate within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn602 b:23.8 occ:0.99 O3P A:TPO89 1.9 28.3 1.0 NE2 A:HIS304 2.0 22.0 1.0 NE2 A:HIS491 2.1 25.8 1.0 OD1 A:ASP300 2.2 20.4 1.0 O A:HOH702 2.5 39.2 1.0 OD2 A:ASP300 2.5 23.6 1.0 CG A:ASP300 2.7 23.6 1.0 CD2 A:HIS304 2.9 26.8 1.0 CE1 A:HIS304 3.0 27.4 1.0 CE1 A:HIS491 3.0 26.2 1.0 CD2 A:HIS491 3.1 20.5 1.0 P A:TPO89 3.3 29.7 1.0 O2P A:TPO89 3.6 30.6 1.0 ZN A:ZN601 4.0 23.3 0.9 CE1 A:HIS346 4.0 23.0 1.0 NE2 A:GLN50 4.0 21.7 1.0 NE2 A:HIS346 4.1 22.8 1.0 NZ A:LYS171 4.1 27.4 1.0 ND1 A:HIS304 4.1 28.0 1.0 O1P A:TPO89 4.1 28.8 1.0 CG A:HIS304 4.1 27.2 1.0 CB A:ASP300 4.2 20.9 1.0 ND1 A:HIS491 4.2 24.6 1.0 O A:HOH959 4.2 47.7 1.0 CG A:HIS491 4.2 21.8 1.0 OG1 A:TPO89 4.3 23.3 1.0 OD1 A:ASP49 4.4 21.1 1.0 O A:ASP300 4.9 24.1 1.0 CA A:ASP300 5.0 23.5 1.0

S.C.Bihani, S.C.Bihani. N/A N/A.