Atomistry » Calcium » PDB 3vi4-3vs6 » 3vi7
Atomistry »
  Calcium »
    PDB 3vi4-3vs6 »
      3vi7 »

Calcium in PDB 3vi7: Human Hematopoietic Prostaglandin D Synthase Inhibitor Complex Structures

Enzymatic activity of Human Hematopoietic Prostaglandin D Synthase Inhibitor Complex Structures

All present enzymatic activity of Human Hematopoietic Prostaglandin D Synthase Inhibitor Complex Structures:
2.5.1.18; 5.3.99.2;

Protein crystallography data

The structure of Human Hematopoietic Prostaglandin D Synthase Inhibitor Complex Structures, PDB code: 3vi7 was solved by Y.Kado, T.Inoue, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 45.85 / 2.00
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 49.043, 47.359, 184.941, 90.00, 97.41, 90.00
R / Rfree (%) 17.4 / 23.3

Other elements in 3vi7:

The structure of Human Hematopoietic Prostaglandin D Synthase Inhibitor Complex Structures also contains other interesting chemical elements:

Chlorine (Cl) 2 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the Human Hematopoietic Prostaglandin D Synthase Inhibitor Complex Structures (pdb code 3vi7). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Human Hematopoietic Prostaglandin D Synthase Inhibitor Complex Structures, PDB code: 3vi7:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in 3vi7

Go back to Calcium Binding Sites List in 3vi7
Calcium binding site 1 out of 2 in the Human Hematopoietic Prostaglandin D Synthase Inhibitor Complex Structures


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Human Hematopoietic Prostaglandin D Synthase Inhibitor Complex Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca902

b:43.2
occ:1.00
O B:HOH42 1.9 18.9 1.0
O C:HOH336 2.6 28.6 1.0
O C:HOH165 2.6 24.6 1.0
O B:HOH462 2.6 36.1 1.0
OD2 C:ASP496 2.8 20.3 1.0
O B:HOH505 2.9 28.5 1.0
O C:HOH296 3.9 24.7 1.0
CG C:ASP496 3.9 19.6 1.0
O B:HOH448 4.2 29.1 1.0
CB C:ASP496 4.3 15.7 1.0
OD2 B:ASP297 4.3 13.5 1.0
OD2 B:ASP296 4.3 14.4 1.0
OD2 C:ASP497 4.4 18.4 1.0
OD2 C:ASP493 4.4 11.8 1.0
OD2 B:ASP293 4.7 11.0 1.0
CD1 C:LEU465 4.7 17.6 1.0
CG C:ASP493 4.8 15.1 1.0
CG B:ASP293 4.9 13.0 1.0
O B:HOH447 4.9 35.7 1.0
OD1 C:ASP496 4.9 24.4 1.0
OD1 B:ASP293 5.0 15.6 1.0

Calcium binding site 2 out of 2 in 3vi7

Go back to Calcium Binding Sites List in 3vi7
Calcium binding site 2 out of 2 in the Human Hematopoietic Prostaglandin D Synthase Inhibitor Complex Structures


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Human Hematopoietic Prostaglandin D Synthase Inhibitor Complex Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ca901

b:37.8
occ:1.00
O A:HOH239 2.0 29.3 1.0
O A:HOH302 2.5 40.6 1.0
O D:HOH835 2.5 37.4 1.0
O D:HOH255 2.7 29.4 1.0
OD2 D:ASP696 2.7 21.5 1.0
O A:HOH345 3.3 29.1 1.0
O D:HOH832 3.5 47.6 1.0
CG D:ASP696 3.8 20.6 1.0
OD2 A:ASP97 4.1 18.9 1.0
CB D:ASP696 4.2 16.3 1.0
CD1 D:LEU665 4.4 15.9 1.0
OD2 D:ASP693 4.5 17.6 1.0
OD1 A:ASP93 4.5 17.3 1.0
O A:HOH489 4.6 25.6 1.0
OD2 A:ASP96 4.6 18.6 1.0
CG A:ASP93 4.7 12.8 1.0
OD2 A:ASP93 4.7 10.1 1.0
OD2 D:ASP697 4.8 18.1 1.0
OD1 D:ASP696 4.8 26.9 1.0
CG D:ASP693 4.9 17.4 1.0

Reference:

Y.Kado, K.Aritake, N.Uodome, Y.Okano, N.Okazaki, H.Matsumura, Y.Urade, T.Inoue. Human Hematopoietic Prostaglandin D Synthase Inhibitor Complex Structures J.Biochem. V. 151 447 2012.
ISSN: ISSN 0021-924X
PubMed: 22418579
DOI: 10.1093/JB/MVS024
Page generated: Sat Dec 12 04:34:17 2020

Last articles

Zn in 7VD8
Zn in 7V1R
Zn in 7V1Q
Zn in 7VPF
Zn in 7T85
Zn in 7T5F
Zn in 7NF9
Zn in 7M4M
Zn in 7M4O
Zn in 7M4N
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy