Magnesium in PDB 5y1v: Crystal Structure of Plasmodium Falciparum Aminopeptidase N in Complex with (S)-2-(3-(2,6-Diethylphenyl)Ureido)- N-Hydroxy-4- Methylpentanamide

The structure of Crystal Structure of Plasmodium Falciparum Aminopeptidase N in Complex with (S)-2-(3-(2,6-Diethylphenyl)Ureido)- N-Hydroxy-4- Methylpentanamide, PDB code: 5y1v was solved by A.K.Marapaka, Y.Zhang, A.Addlagatta, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	28.32 / 1.62
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	74.588, 109.394, 112.630, 90.00, 90.00, 90.00
R / Rfree (%)	16.9 / 20.2

The structure of Crystal Structure of Plasmodium Falciparum Aminopeptidase N in Complex with (S)-2-(3-(2,6-Diethylphenyl)Ureido)- N-Hydroxy-4- Methylpentanamide also contains other interesting chemical elements:

Zinc

(Zn)

1 atom

The binding sites of Magnesium atom in the Crystal Structure of Plasmodium Falciparum Aminopeptidase N in Complex with (S)-2-(3-(2,6-Diethylphenyl)Ureido)- N-Hydroxy-4- Methylpentanamide (pdb code 5y1v). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Crystal Structure of Plasmodium Falciparum Aminopeptidase N in Complex with (S)-2-(3-(2,6-Diethylphenyl)Ureido)- N-Hydroxy-4- Methylpentanamide, PDB code: 5y1v:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structure of Plasmodium Falciparum Aminopeptidase N in Complex with (S)-2-(3-(2,6-Diethylphenyl)Ureido)- N-Hydroxy-4- Methylpentanamide


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of Plasmodium Falciparum Aminopeptidase N in Complex with (S)-2-(3-(2,6-Diethylphenyl)Ureido)- N-Hydroxy-4- Methylpentanamide within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1102 b:18.1 occ:0.80 O A:GLY250 2.1 16.5 1.0 O A:HOH1683 2.1 22.4 1.0 O A:HOH1716 2.1 22.2 1.0 C A:GLY250 3.2 17.6 1.0 CA A:GLY250 3.9 16.7 1.0 O A:HOH1377 4.1 18.0 1.0 O A:HOH1823 4.2 30.1 1.0 O A:HOH1293 4.3 34.2 1.0 N A:LEU251 4.3 15.1 1.0 CA A:LEU251 4.6 15.7 1.0 O A:ILE295 4.7 15.3 1.0 O A:HOH1567 4.7 21.5 1.0 CA A:ILE296 4.7 13.8 1.0 CD2 A:HIS297 4.8 19.7 1.0

Magnesium binding site 2 out of 2 in the Crystal Structure of Plasmodium Falciparum Aminopeptidase N in Complex with (S)-2-(3-(2,6-Diethylphenyl)Ureido)- N-Hydroxy-4- Methylpentanamide


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of Plasmodium Falciparum Aminopeptidase N in Complex with (S)-2-(3-(2,6-Diethylphenyl)Ureido)- N-Hydroxy-4- Methylpentanamide within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1103 b:21.3 occ:1.00 O A:HOH1812 2.0 22.1 1.0 O A:HOH1865 2.1 22.2 1.0 O A:HOH1556 2.1 19.4 1.0 O A:HOH1870 2.1 23.5 1.0 O A:HOH1389 2.1 22.2 1.0 O A:HOH1595 2.2 20.4 1.0 OE2 A:GLU957 3.8 18.1 1.0 O A:HOH1637 4.0 27.6 1.0 O A:HOH1383 4.1 20.9 1.0 O A:HOH1809 4.2 29.1 1.0 O A:HOH1825 4.2 31.8 1.0 O A:HOH1878 4.2 20.4 1.0 ND2 A:ASN992 4.2 19.8 1.0 OD2 A:ASP995 4.2 18.8 1.0 O A:HOH1331 4.5 22.3 1.0 O A:HOH1568 4.5 16.9 1.0 CD A:GLU957 4.6 19.1 1.0 CG A:GLU957 4.9 23.7 1.0

A.K.Marapaka, A.Addlagatta. Crystal Structure of Plasmodium Falciparum Aminopeptidase N in Complex with (S)-2-(3-(2,6-Diethylphenyl)Ureido)- N-Hydroxy-4-Methylpentanamide To Be Published.