Zinc in PDB 3mk2: Placental Alkaline Phosphatase Complexed with Phe

All present enzymatic activity of Placental Alkaline Phosphatase Complexed with Phe:
3.1.3.1;

The structure of Placental Alkaline Phosphatase Complexed with Phe, PDB code: 3mk2 was solved by B.Stec, A.Cheltsov, J.L.Millan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	69.84 / 1.89
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	87.791, 114.944, 106.341, 90.00, 90.00, 90.00
R / Rfree (%)	12.3 / 16.3

The structure of Placental Alkaline Phosphatase Complexed with Phe also contains other interesting chemical elements:

Magnesium	(Mg)	1 atom
Calcium	(Ca)	1 atom

The binding sites of Zinc atom in the Placental Alkaline Phosphatase Complexed with Phe (pdb code 3mk2). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Placental Alkaline Phosphatase Complexed with Phe, PDB code: 3mk2:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Placental Alkaline Phosphatase Complexed with Phe


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Placental Alkaline Phosphatase Complexed with Phe within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn901 b:13.8 occ:1.00 NE2 A:HIS432 2.0 12.0 1.0 OD1 A:ASP316 2.0 12.3 1.0 NE2 A:HIS320 2.1 12.7 1.0 O3P A:SEP92 2.1 12.2 1.0 N A:PHE912 2.2 43.1 0.8 OD2 A:ASP316 2.4 11.4 1.0 CG A:ASP316 2.5 12.3 1.0 CD2 A:HIS432 3.0 12.0 1.0 CA A:PHE912 3.0 44.4 0.8 CE1 A:HIS432 3.0 13.8 1.0 CD2 A:HIS320 3.0 12.1 1.0 CE1 A:HIS320 3.1 13.2 1.0 P A:SEP92 3.2 13.4 1.0 O1P A:SEP92 3.6 14.0 1.0 O2P A:SEP92 3.9 13.6 1.0 O A:HOH1001 3.9 12.4 1.0 CD1 A:PHE912 4.0 44.9 0.8 C A:PHE912 4.0 44.4 0.8 CB A:ASP316 4.0 10.9 1.0 ZN A:ZN902 4.0 13.8 1.0 ND1 A:HIS432 4.1 11.1 1.0 CG A:HIS432 4.1 13.1 1.0 CB A:PHE912 4.2 44.4 0.8 CE1 A:HIS358 4.2 11.9 1.0 ND1 A:HIS320 4.2 12.7 1.0 CG A:HIS320 4.2 12.0 1.0 NE2 A:HIS358 4.3 12.0 1.0 CE1 A:HIS360 4.3 10.9 1.0 O A:PHE912 4.4 44.5 0.8 OD1 A:ASP42 4.5 11.3 1.0 CG A:PHE912 4.5 44.7 0.8 OG A:SEP92 4.6 13.6 1.0 NE2 A:HIS360 4.6 11.0 1.0 OXT A:PHE912 4.8 44.5 0.8 O A:ASP316 4.9 10.9 1.0 CA A:ASP316 4.9 11.0 1.0 C A:ASP316 5.0 10.8 1.0

Zinc binding site 2 out of 2 in the Placental Alkaline Phosphatase Complexed with Phe


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Placental Alkaline Phosphatase Complexed with Phe within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn902 b:13.8 occ:1.00 OD1 A:ASP42 1.8 11.3 1.0 OG A:SEP92 2.1 13.6 1.0 NE2 A:HIS358 2.1 12.0 1.0 OD2 A:ASP357 2.1 11.7 1.0 O3P A:SEP92 2.2 12.2 1.0 CG A:ASP42 2.7 10.6 1.0 P A:SEP92 2.9 13.4 1.0 CG A:ASP357 2.9 10.5 1.0 OD2 A:ASP42 2.9 11.9 1.0 CD2 A:HIS358 3.0 11.5 1.0 CE1 A:HIS358 3.1 11.9 1.0 OD1 A:ASP357 3.1 9.7 1.0 CB A:SEP92 3.4 11.8 1.0 OD2 A:ASP316 3.7 11.4 1.0 CA A:SEP92 3.9 12.6 1.0 O1P A:SEP92 3.9 14.0 1.0 CG A:ASP316 3.9 12.3 1.0 O2P A:SEP92 4.0 13.6 1.0 ZN A:ZN901 4.0 13.8 1.0 CE1 A:HIS432 4.1 13.8 1.0 CB A:ASP42 4.1 11.3 1.0 NE2 A:HIS432 4.1 12.0 1.0 ND1 A:HIS358 4.1 11.3 1.0 CG A:HIS358 4.1 11.2 1.0 N A:SEP92 4.2 13.0 1.0 N A:GLY43 4.2 10.7 1.0 OD1 A:ASP316 4.2 12.3 1.0 CB A:ASP357 4.3 10.2 1.0 O A:HOH1041 4.4 11.7 1.0 CA A:ASP42 4.4 10.8 1.0 C A:ASP42 4.5 10.3 1.0 CB A:ASP316 4.5 10.9 1.0 O A:HOH1001 4.7 12.4 1.0 MG A:MG903 4.7 10.8 1.0 O A:HOH1053 4.7 12.6 1.0 ND1 A:HIS432 4.9 11.1 1.0 C A:ASP91 4.9 12.8 1.0 CA A:GLY43 4.9 10.6 1.0 CD2 A:HIS432 4.9 12.0 1.0

B.Stec, A.Cheltsov, J.L.Millan. Refined Structures of Placental Alkaline Phosphatase Show A Consistent Pattern of Interactions at the Peripheral Site. Acta Crystallogr.,Sect.F V. 66 866 2010.
ISSN: ESSN 1744-3091
PubMed: 20693656
DOI: 10.1107/S1744309110019767