Magnesium in PDB 5hi8: Structure of T-Type Phycobiliprotein Lyase Cpet From Prochlorococcus Phage P-HM1

The structure of Structure of T-Type Phycobiliprotein Lyase Cpet From Prochlorococcus Phage P-HM1, PDB code: 5hi8 was solved by R.Gasper, J.Schwach, N.Frankenberg-Dinkel, E.Hofmann, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	43.92 / 1.80
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	63.290, 61.680, 93.340, 90.00, 109.77, 90.00
R / Rfree (%)	20.7 / 22.8

The binding sites of Magnesium atom in the Structure of T-Type Phycobiliprotein Lyase Cpet From Prochlorococcus Phage P-HM1 (pdb code 5hi8). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Structure of T-Type Phycobiliprotein Lyase Cpet From Prochlorococcus Phage P-HM1, PDB code: 5hi8:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Structure of T-Type Phycobiliprotein Lyase Cpet From Prochlorococcus Phage P-HM1


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of T-Type Phycobiliprotein Lyase Cpet From Prochlorococcus Phage P-HM1 within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg201 b:53.9 occ:1.00 O B:HOH320 2.0 36.6 1.0 O A:HOH327 2.0 49.6 1.0 O A:HOH303 2.2 42.9 1.0 O B:HOH339 2.2 46.3 1.0 O A:HOH301 2.2 35.5 1.0 O B:HOH311 2.3 42.8 1.0 HA A:PRO74 3.7 44.7 1.0 OE1 A:GLU92 3.8 48.4 1.0 O A:HOH336 3.8 49.2 1.0 HE2 B:LYS40 4.0 66.0 1.0 OE2 A:GLU92 4.0 50.5 1.0 OD2 A:ASP77 4.1 40.9 1.0 HE1 A:HIS72 4.1 58.8 1.0 O A:PRO74 4.2 36.5 1.0 OD2 B:ASP60 4.2 42.0 1.0 OD1 B:ASP60 4.3 39.4 1.0 O B:HOH307 4.3 51.0 1.0 CD A:GLU92 4.4 48.5 1.0 HZ1 B:LYS40 4.4 70.6 1.0 CG A:ASP77 4.6 40.1 1.0 CA A:PRO74 4.6 37.2 1.0 HZ3 B:LYS40 4.6 70.6 1.0 HD1 A:HIS72 4.6 54.2 1.0 OD1 A:ASP77 4.7 41.1 1.0 CG B:ASP60 4.7 39.8 1.0 CE B:LYS40 4.8 55.0 1.0 NZ B:LYS40 4.8 58.8 1.0 C A:PRO74 4.8 37.6 1.0 O A:ASN73 4.8 35.5 1.0 CE1 A:HIS72 4.9 49.0 1.0

Magnesium binding site 2 out of 2 in the Structure of T-Type Phycobiliprotein Lyase Cpet From Prochlorococcus Phage P-HM1


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of T-Type Phycobiliprotein Lyase Cpet From Prochlorococcus Phage P-HM1 within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg201 b:51.3 occ:1.00 O A:HOH311 2.0 31.9 1.0 O B:HOH326 2.1 50.4 1.0 O B:HOH305 2.2 40.5 1.0 O B:HOH302 2.2 37.6 1.0 O A:HOH338 2.2 61.5 1.0 O A:HOH313 2.3 39.9 1.0 HA B:PRO74 3.6 42.5 1.0 OE1 B:GLU92 3.8 47.1 1.0 O B:HOH337 3.9 46.5 1.0 HE2 A:LYS40 4.0 66.6 1.0 HE1 B:HIS72 4.0 51.0 1.0 OD2 A:ASP60 4.1 40.9 1.0 OD2 B:ASP77 4.1 39.1 1.0 OE2 B:GLU92 4.1 51.3 1.0 O B:PRO74 4.1 34.2 1.0 OD1 A:ASP60 4.2 42.0 1.0 O A:HOH318 4.3 50.9 1.0 CD B:GLU92 4.4 47.8 1.0 HZ1 A:LYS40 4.5 70.7 1.0 CA B:PRO74 4.5 35.4 1.0 HD1 B:HIS72 4.5 49.1 1.0 HZ3 A:LYS40 4.6 70.7 1.0 CG B:ASP77 4.6 37.9 1.0 CG A:ASP60 4.6 40.8 1.0 OD1 B:ASP77 4.6 38.9 1.0 C B:PRO74 4.7 34.9 1.0 CE1 B:HIS72 4.8 42.5 1.0 O B:ASN73 4.8 36.7 1.0 CE A:LYS40 4.8 55.5 1.0 NZ A:LYS40 4.8 58.9 1.0 HB3 B:PRO74 4.9 44.6 1.0 ND1 B:HIS72 5.0 40.9 1.0

R.Gasper, J.Schwach, J.Hartmann, A.Holtkamp, J.Wiethaus, N.Riedel, E.Hofmann, N.Frankenberg-Dinkel. Distinct Features of Cyanophage-Encoded T-Type Phycobiliprotein Lyase Phi Cpet: the Role of Auxiliary Metabolic Genes. J. Biol. Chem. V. 292 3089 2017.
ISSN: ESSN 1083-351X
PubMed: 28073912
DOI: 10.1074/JBC.M116.769703