Calcium in PDB 3k5t: Crystal Structure of Human Diamine Oxidase in Space Group C2221

All present enzymatic activity of Crystal Structure of Human Diamine Oxidase in Space Group C2221:
1.4.3.22;

The structure of Crystal Structure of Human Diamine Oxidase in Space Group C2221, PDB code: 3k5t was solved by A.P.Mcgrath, J.M.Guss, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	89.09 / 2.11
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	94.771, 96.954, 178.060, 90.00, 90.00, 90.00
R / Rfree (%)	23.6 / 29

The structure of Crystal Structure of Human Diamine Oxidase in Space Group C2221 also contains other interesting chemical elements:

Copper

(Cu)

1 atom

The binding sites of Calcium atom in the Crystal Structure of Human Diamine Oxidase in Space Group C2221 (pdb code 3k5t). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Crystal Structure of Human Diamine Oxidase in Space Group C2221, PDB code: 3k5t:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Crystal Structure of Human Diamine Oxidase in Space Group C2221


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Crystal Structure of Human Diamine Oxidase in Space Group C2221 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca802 b:19.3 occ:1.00 OD1 A:ASP521 2.1 18.6 1.0 O A:LEU665 2.3 15.0 1.0 O A:LEU520 2.4 14.9 1.0 OD1 A:ASP519 2.4 19.8 1.0 OD1 A:ASP664 2.5 15.2 1.0 O A:HOH809 3.0 24.8 1.0 C A:LEU520 3.3 16.0 1.0 CG A:ASP521 3.4 17.4 1.0 C A:LEU665 3.4 15.7 1.0 CG A:ASP519 3.6 16.8 1.0 N A:LEU665 3.6 16.5 1.0 NZ A:LYS79 3.7 24.1 1.0 CG A:ASP664 3.7 17.0 1.0 N A:ASP521 3.9 16.4 1.0 C A:ASP519 4.0 16.8 1.0 CA A:ASP521 4.0 16.6 1.0 O A:ASP519 4.1 17.4 1.0 CA A:LEU665 4.1 15.9 1.0 N A:LEU520 4.1 16.7 1.0 C A:ASP664 4.2 17.6 1.0 OD2 A:ASP521 4.2 20.9 1.0 CB A:ASP521 4.3 16.8 1.0 OD2 A:ASP519 4.3 18.4 1.0 CA A:LEU520 4.4 16.3 1.0 CA A:ASP664 4.4 18.4 1.0 O A:THR525 4.4 20.5 1.0 CA A:ASP519 4.4 16.8 1.0 N A:VAL666 4.5 15.8 1.0 OD2 A:ASP664 4.5 11.2 1.0 CB A:ASP519 4.6 16.9 1.0 CB A:ASP664 4.7 17.8 1.0 CG2 A:VAL666 4.8 15.4 1.0 OD1 A:ASN527 4.9 17.7 1.0 CB A:LEU665 4.9 16.0 1.0 CA A:VAL666 4.9 15.5 1.0 O A:ASP664 5.0 17.0 1.0

Calcium binding site 2 out of 2 in the Crystal Structure of Human Diamine Oxidase in Space Group C2221


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Crystal Structure of Human Diamine Oxidase in Space Group C2221 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca803 b:35.5 occ:1.00 OD1 A:ASN656 2.3 30.8 1.0 OE2 A:GLU562 2.4 15.9 1.0 O A:PHE653 2.4 25.8 1.0 O A:HOH951 2.4 14.8 1.0 OE1 A:GLU562 2.5 14.3 1.0 OE1 A:GLU658 2.8 22.6 1.0 CD A:GLU562 2.8 15.4 1.0 CG A:ASN656 3.3 27.5 1.0 CD A:GLU658 3.6 25.1 1.0 C A:PHE653 3.6 25.4 1.0 ND2 A:ASN656 3.7 27.0 1.0 CG A:GLU658 4.0 24.9 1.0 O A:HOH836 4.2 19.4 1.0 CG A:GLU562 4.3 16.6 1.0 CB A:GLU658 4.3 24.4 1.0 OE1 A:GLU631 4.4 20.7 1.0 OE2 A:GLU631 4.4 25.2 1.0 N A:GLU658 4.4 24.3 1.0 CA A:LEU654 4.5 25.7 1.0 N A:LEU654 4.5 25.3 1.0 CA A:PHE653 4.6 25.2 1.0 N A:ASN657 4.6 24.9 1.0 OE2 A:GLU658 4.6 28.6 1.0 CB A:ASN656 4.6 26.3 1.0 N A:ASN656 4.7 26.3 1.0 C A:LEU654 4.7 26.2 1.0 C A:ASN656 4.8 25.5 1.0 CD A:GLU631 4.9 22.9 1.0 CA A:ASN656 4.9 26.0 1.0

A.P.Mcgrath, K.M.Hilmer, C.A.Collyer, D.M.Dooley, J.M.Guss. A New Crystal Form of Human Diamine Oxidase. Acta Crystallogr.,Sect.F V. 66 137 2010.
ISSN: ESSN 1744-3091
PubMed: 20124708
DOI: 10.1107/S1744309109052130