Zinc in PDB 1k7h: Crystal Structure of Shrimp Alkaline Phosphatase

All present enzymatic activity of Crystal Structure of Shrimp Alkaline Phosphatase:
3.1.3.1;

The structure of Crystal Structure of Shrimp Alkaline Phosphatase, PDB code: 1k7h was solved by M.E.De Backer, S.Mc Sweeney, H.B.Rasmussen, B.W.Riise, P.Lindley, E.Hough, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	119.50 / 1.92
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	171.169, 171.169, 84.332, 90.00, 90.00, 90.00
R / Rfree (%)	19.8 / 22.7

The binding sites of Zinc atom in the Crystal Structure of Shrimp Alkaline Phosphatase (pdb code 1k7h). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 6 binding sites of Zinc where determined in the Crystal Structure of Shrimp Alkaline Phosphatase, PDB code: 1k7h:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6;

Zinc binding site 1 out of 6 in the Crystal Structure of Shrimp Alkaline Phosphatase


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 Shrimp Alkaline Phosphatase within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn477 b:23.6 occ:0.96 OD2 A:ASP315 2.0 25.4 1.0 NE2 A:HIS432 2.0 20.1 1.0 NE2 A:HIS319 2.0 19.9 1.0 CG A:ASP315 2.8 22.7 1.0 OD1 A:ASP315 2.8 20.6 1.0 CE1 A:HIS319 2.9 20.0 1.0 CD2 A:HIS432 3.0 21.9 1.0 CE1 A:HIS432 3.0 21.8 1.0 CD2 A:HIS319 3.1 23.1 1.0 O A:HOH892 3.9 25.4 1.0 ND1 A:HIS319 4.0 25.0 1.0 ND1 A:HIS432 4.1 22.6 1.0 CG A:HIS432 4.1 21.0 1.0 CG A:HIS319 4.2 23.4 1.0 CB A:ASP315 4.2 20.5 1.0 CE1 A:HIS357 4.3 21.0 1.0 OG A:SER86 4.3 23.4 1.0 CE1 A:HIS359 4.4 18.3 1.0 NE2 A:HIS357 4.4 19.7 1.0 ZN A:ZN478 4.5 23.2 1.0 OD1 A:ASP37 4.8 19.2 1.0

Zinc binding site 2 out of 6 in the Crystal Structure of Shrimp Alkaline Phosphatase


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 Shrimp Alkaline Phosphatase within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn478 b:23.2 occ:0.97 OG A:SER86 1.7 23.4 1.0 OD2 A:ASP356 1.9 22.3 1.0 OD1 A:ASP37 2.0 19.2 1.0 NE2 A:HIS357 2.0 19.7 1.0 CG A:ASP37 2.6 22.8 1.0 OD2 A:ASP37 2.7 23.0 1.0 CD2 A:HIS357 2.9 18.2 1.0 CB A:SER86 2.9 21.7 1.0 CG A:ASP356 2.9 21.0 1.0 CE1 A:HIS357 3.0 21.0 1.0 OD1 A:ASP356 3.2 17.5 1.0 CA A:SER86 3.6 22.3 1.0 CE1 A:HIS432 3.9 21.8 1.0 CB A:ASP37 4.0 18.6 1.0 CG A:HIS357 4.0 20.0 1.0 ND1 A:HIS357 4.1 18.8 1.0 N A:SER86 4.1 22.1 1.0 OD2 A:ASP315 4.1 25.4 1.0 CG A:ASP315 4.1 22.7 1.0 O A:HOH615 4.2 21.5 1.0 OD1 A:ASP315 4.2 20.6 1.0 NE2 A:HIS432 4.3 20.1 1.0 CB A:ASP356 4.3 19.4 1.0 N A:GLY38 4.3 18.8 1.0 CA A:ASP37 4.4 19.6 1.0 ZN A:ZN477 4.5 23.6 1.0 ZN A:ZN479 4.5 27.4 0.9 C A:ASP37 4.5 18.1 1.0 O A:HOH892 4.6 25.4 1.0 CB A:ASP315 4.7 20.5 1.0 ND1 A:HIS432 4.7 22.6 1.0 C A:ASP85 4.8 20.9 1.0 C A:SER86 4.9 21.4 1.0 O A:HOH762 4.9 27.1 1.0 CA A:GLY38 4.9 18.2 1.0

Zinc binding site 3 out of 6 in the Crystal Structure of Shrimp Alkaline Phosphatase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Crystal Structure of Shrimp Alkaline Phosphatase within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn479 b:27.4 occ:0.88 NE2 A:HIS149 1.9 30.2 1.0 OD2 A:ASP37 1.9 23.0 1.0 OE2 A:GLU310 1.9 18.6 1.0 O A:HOH762 2.2 27.1 1.0 OG1 A:THR151 2.3 20.6 1.0 CD2 A:HIS149 2.7 27.4 1.0 CG A:ASP37 2.9 22.8 1.0 CD A:GLU310 3.0 18.6 1.0 CE1 A:HIS149 3.0 34.4 1.0 CB A:THR151 3.3 19.8 1.0 CB A:ASP37 3.3 18.6 1.0 OE1 A:GLU310 3.4 20.6 1.0 CG A:HIS149 3.9 28.5 1.0 OD1 A:ASP37 4.0 19.2 1.0 ND1 A:HIS149 4.1 30.3 1.0 O A:HOH892 4.1 25.4 1.0 CG2 A:THR151 4.2 21.5 1.0 N A:THR151 4.2 20.0 1.0 CG A:GLU310 4.3 16.6 1.0 CA A:THR151 4.4 19.8 1.0 CG2 A:THR145 4.4 23.8 1.0 ZN A:ZN478 4.5 23.2 1.0 O A:GLY312 4.5 22.8 1.0 OG A:SER86 4.6 23.4 1.0 O A:HOH615 4.6 21.5 1.0 CA A:GLY312 4.6 21.5 1.0 CB A:SER86 4.6 21.7 1.0 OD2 A:ASP356 4.7 22.3 1.0 CA A:ASP37 4.8 19.6 1.0

Zinc binding site 4 out of 6 in the Crystal Structure of Shrimp Alkaline Phosphatase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Crystal Structure of Shrimp Alkaline Phosphatase within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn477 b:22.8 occ:0.94 OD2 B:ASP315 2.0 24.7 1.0 NE2 B:HIS432 2.0 20.7 1.0 NE2 B:HIS319 2.0 19.6 1.0 CG B:ASP315 2.8 22.5 1.0 OD1 B:ASP315 2.8 20.8 1.0 CE1 B:HIS319 3.0 19.9 1.0 CD2 B:HIS432 3.0 21.0 1.0 CE1 B:HIS432 3.0 22.5 1.0 CD2 B:HIS319 3.1 22.7 1.0 O B:HOH902 3.9 27.0 1.0 ND1 B:HIS319 4.1 24.7 1.0 ND1 B:HIS432 4.1 22.0 1.0 CG B:HIS432 4.2 20.9 1.0 OG B:SER86 4.2 23.3 1.0 CG B:HIS319 4.2 23.8 1.0 CB B:ASP315 4.2 20.3 1.0 CE1 B:HIS357 4.3 21.3 1.0 NE2 B:HIS359 4.4 21.8 1.0 NE2 B:HIS357 4.4 19.9 1.0 ZN B:ZN478 4.5 22.3 0.9 OD1 B:ASP37 4.7 20.2 1.0 CE1 B:HIS359 4.9 19.1 1.0

Zinc binding site 5 out of 6 in the Crystal Structure of Shrimp Alkaline Phosphatase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Crystal Structure of Shrimp Alkaline Phosphatase within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn478 b:22.3 occ:0.92 OG B:SER86 1.7 23.3 1.0 OD1 B:ASP37 1.9 20.2 1.0 OD2 B:ASP356 2.0 20.9 1.0 NE2 B:HIS357 2.1 19.9 1.0 CG B:ASP37 2.6 22.7 1.0 OD2 B:ASP37 2.7 22.8 1.0 CB B:SER86 2.9 21.7 1.0 CD2 B:HIS357 2.9 18.8 1.0 CG B:ASP356 3.0 22.4 1.0 CE1 B:HIS357 3.1 21.3 1.0 OD1 B:ASP356 3.2 18.7 1.0 CA B:SER86 3.6 21.8 1.0 CE1 B:HIS432 3.9 22.5 1.0 CB B:ASP37 4.0 20.2 1.0 CG B:HIS357 4.1 19.8 1.0 OD2 B:ASP315 4.1 24.7 1.0 N B:SER86 4.1 21.3 1.0 ND1 B:HIS357 4.1 18.2 1.0 CG B:ASP315 4.2 22.5 1.0 O B:HOH550 4.2 19.9 1.0 NE2 B:HIS432 4.2 20.7 1.0 OD1 B:ASP315 4.2 20.8 1.0 N B:GLY38 4.3 17.9 1.0 CB B:ASP356 4.3 18.9 1.0 CA B:ASP37 4.5 19.7 1.0 ZN B:ZN477 4.5 22.8 0.9 ZN B:ZN479 4.5 28.6 0.9 C B:ASP37 4.6 18.5 1.0 CB B:ASP315 4.7 20.3 1.0 ND1 B:HIS432 4.7 22.0 1.0 O B:HOH902 4.8 27.0 1.0 C B:ASP85 4.9 21.5 1.0 O B:HOH761 4.9 24.0 1.0 C B:SER86 4.9 21.0 1.0 CA B:GLY38 5.0 17.6 1.0

Zinc binding site 6 out of 6 in the Crystal Structure of Shrimp Alkaline Phosphatase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Crystal Structure of Shrimp Alkaline Phosphatase within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn479 b:28.6 occ:0.88 NE2 B:HIS149 1.9 29.9 1.0 OE2 B:GLU310 1.9 19.6 1.0 OD2 B:ASP37 1.9 22.8 1.0 O B:HOH761 2.1 24.0 1.0 OG1 B:THR151 2.4 20.2 1.0 CD2 B:HIS149 2.7 28.0 1.0 CG B:ASP37 2.9 22.7 1.0 CE1 B:HIS149 3.0 34.6 1.0 CD B:GLU310 3.0 19.9 1.0 CB B:THR151 3.3 19.4 1.0 CB B:ASP37 3.4 20.2 1.0 OE1 B:GLU310 3.4 22.3 1.0 CG B:HIS149 3.9 28.0 1.0 OD1 B:ASP37 4.0 20.2 1.0 ND1 B:HIS149 4.0 29.7 1.0 CG2 B:THR151 4.2 21.8 1.0 O B:HOH902 4.2 27.0 1.0 N B:THR151 4.3 19.1 1.0 CG B:GLU310 4.3 18.4 1.0 CG2 B:THR145 4.3 23.2 1.0 CA B:THR151 4.5 20.1 1.0 O B:GLY312 4.5 22.8 1.0 CA B:GLY312 4.5 21.7 1.0 ZN B:ZN478 4.5 22.3 0.9 O B:HOH550 4.6 19.9 1.0 OG B:SER86 4.6 23.3 1.0 CB B:SER86 4.6 21.7 1.0 CA B:ASP37 4.8 19.7 1.0 OD2 B:ASP356 4.8 20.9 1.0

M.E.De Backer, S.Mc Sweeney, H.B.Rasmussen, B.W.Riise, P.Lindley, E.Hough. The 1.9 A Crystal Structure of Heat-Labile Shrimp Alkaline Phosphatase J.Mol.Biol. V. 318 1265 2002.
ISSN: ISSN 0022-2836
PubMed: 12083516
DOI: 10.1016/S0022-2836(02)00035-9