Calcium in PDB 6hyj: Psph Human Phosphoserine Phosphatase

All present enzymatic activity of Psph Human Phosphoserine Phosphatase:
3.1.3.3;

The structure of Psph Human Phosphoserine Phosphatase, PDB code: 6hyj was solved by J.Wouters, M.Haufroid, M.Mirgaux, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	34.23 / 1.93
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	48.670, 128.970, 155.710, 90.00, 90.00, 90.00
R / Rfree (%)	20 / 26.3

The binding sites of Calcium atom in the Psph Human Phosphoserine Phosphatase (pdb code 6hyj). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Psph Human Phosphoserine Phosphatase, PDB code: 6hyj:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Psph Human Phosphoserine Phosphatase


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Psph Human Phosphoserine Phosphatase within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca302 b:35.5 occ:1.00 OD1 A:ASP179 2.2 35.8 1.0 O A:HOH416 2.2 40.7 1.0 OD2 A:ASP20 2.3 42.3 1.0 O A:ASP22 2.3 33.5 1.0 O A:HOH422 2.4 38.2 1.0 O A:HOH424 2.4 43.3 1.0 CG A:ASP20 3.0 38.2 1.0 OD1 A:ASP20 3.1 36.5 1.0 CG A:ASP179 3.1 39.4 1.0 OD2 A:ASP179 3.4 41.1 1.0 C A:ASP22 3.5 37.2 1.0 CB A:ASP22 4.1 37.5 1.0 OD2 A:ASP183 4.1 41.1 1.0 CA A:ASP22 4.2 36.4 1.0 CB A:SER23 4.3 38.1 1.0 OG A:SEP301 4.3 54.3 0.5 N A:ASP22 4.3 35.6 1.0 O1P A:SEP301 4.4 48.8 0.5 CB A:ASP20 4.4 36.5 1.0 OG1 A:THR24 4.4 36.7 1.0 N A:SER23 4.5 32.6 1.0 OE2 A:GLU29 4.5 59.5 1.0 OXT A:SEP301 4.5 57.9 0.5 CB A:ASP179 4.5 33.6 1.0 O A:HOH413 4.5 37.2 1.0 NZ A:LYS158 4.6 46.1 1.0 N A:ASP179 4.7 35.1 1.0 O A:SEP301 4.7 50.7 0.5 O A:HOH410 4.7 51.3 1.0 C A:SEP301 4.8 56.7 0.5 P A:SEP301 4.8 40.7 0.5 CA A:SER23 4.8 34.1 1.0 OG A:SER23 4.8 45.3 1.0 N A:GLY180 4.9 35.3 1.0 CE A:MET52 5.0 56.4 0.6 O3P A:SEP301 5.0 43.8 0.5

Calcium binding site 2 out of 2 in the Psph Human Phosphoserine Phosphatase


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Psph Human Phosphoserine Phosphatase within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca302 b:38.7 occ:1.00 O B:HOH467 2.2 42.2 1.0 O B:ASP22 2.2 35.0 1.0 OD1 B:ASP179 2.3 38.6 1.0 OD2 B:ASP20 2.4 42.7 1.0 O B:HOH459 2.4 48.9 1.0 O B:HOH420 2.6 44.1 1.0 CG B:ASP20 3.1 40.5 1.0 OD1 B:ASP20 3.1 45.8 1.0 CG B:ASP179 3.3 35.3 1.0 C B:ASP22 3.4 37.2 1.0 OD2 B:ASP179 3.5 43.3 1.0 CB B:ASP22 3.9 38.1 1.0 CA B:ASP22 4.1 37.9 1.0 CB B:SER23 4.2 36.6 1.0 OD2 B:ASP183 4.3 39.9 1.0 N B:ASP22 4.3 32.8 1.0 OG B:SER23 4.3 43.8 1.0 N B:SER23 4.4 37.1 1.0 OG1 B:THR24 4.4 36.5 1.0 O B:HOH412 4.5 40.5 1.0 CB B:ASP20 4.5 31.6 1.0 NZ B:LYS158 4.6 48.6 1.0 CB B:ASP179 4.6 35.2 1.0 CA B:SER23 4.8 40.2 1.0 N B:ASP179 4.8 32.6 1.0 O B:HOH448 4.8 42.6 1.0 NH2 B:ARG202 4.9 50.3 1.0 N B:THR24 4.9 32.2 1.0 C B:VAL21 5.0 35.4 1.0 N B:GLY180 5.0 36.0 1.0 C B:SER23 5.0 34.3 1.0

M.Haufroid, M.Mirgaux, L.Leherte, J.Wouters. Crystal Structures and Snapshots Along the Reaction Pathway of Human Phosphoserine Phosphatase. Acta Crystallogr D Struct V. 75 592 2019BIOL.
ISSN: ISSN 2059-7983
PubMed: 31205021
DOI: 10.1107/S2059798319006867