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Calcium in PDB 9s0v: The Crystal Structure of Human Tissue Nonspecific Alkaline Phosphatase (Htnap) in Complex with Phosphate

Enzymatic activity of The Crystal Structure of Human Tissue Nonspecific Alkaline Phosphatase (Htnap) in Complex with Phosphate

All present enzymatic activity of The Crystal Structure of Human Tissue Nonspecific Alkaline Phosphatase (Htnap) in Complex with Phosphate:
3.1.3.1; 3.9.1.1;

Protein crystallography data

The structure of The Crystal Structure of Human Tissue Nonspecific Alkaline Phosphatase (Htnap) in Complex with Phosphate, PDB code: 9s0v was solved by L.Ballut, S.Violot, I.Imam, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 39.56 / 3.35
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 156.73, 297.7, 205.16, 90, 90, 90
R / Rfree (%) 21.5 / 26.6

Other elements in 9s0v:

The structure of The Crystal Structure of Human Tissue Nonspecific Alkaline Phosphatase (Htnap) in Complex with Phosphate also contains other interesting chemical elements:

Zinc (Zn) 10 atoms
Magnesium (Mg) 5 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the The Crystal Structure of Human Tissue Nonspecific Alkaline Phosphatase (Htnap) in Complex with Phosphate (pdb code 9s0v). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 5 binding sites of Calcium where determined in the The Crystal Structure of Human Tissue Nonspecific Alkaline Phosphatase (Htnap) in Complex with Phosphate, PDB code: 9s0v:
Jump to Calcium binding site number: 1; 2; 3; 4; 5;

Calcium binding site 1 out of 5 in 9s0v

Go back to Calcium Binding Sites List in 9s0v
Calcium binding site 1 out of 5 in the The Crystal Structure of Human Tissue Nonspecific Alkaline Phosphatase (Htnap) in Complex with Phosphate


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of The Crystal Structure of Human Tissue Nonspecific Alkaline Phosphatase (Htnap) in Complex with Phosphate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca604

b:83.0
occ:1.00
 OD1 A:ASP306 2.1 83.2 1.0
O A:PHE290 2.1 68.2 1.0
OE1 A:GLU235 2.2 73.8 1.0
OE2 A:GLU235 2.5 83.2 1.0
OD2 A:ASP306 2.6 83.1 1.0
CG A:ASP306 2.6 83.2 1.0
CD A:GLU235 2.7 76.0 1.0
OE1 A:GLU291 2.7 69.3 1.0
C A:PHE290 3.3 53.3 1.0
CD A:GLU291 3.9 81.4 1.0
NH2 A:ARG223 4.1 59.2 1.0
CB A:ASP306 4.1 63.8 1.0
CA A:PHE290 4.1 39.1 1.0
O A:TRP270 4.2 47.2 1.0
CG A:GLU235 4.2 69.8 1.0
CB A:PHE290 4.3 50.3 1.0
N A:GLU291 4.3 54.4 1.0
OH A:TYR236 4.4 105.7 1.0
CA A:GLU291 4.4 49.8 1.0
O A:THR305 4.5 62.9 1.0
OE2 A:GLU291 4.6 91.8 1.0
CA A:ASP306 4.7 62.2 1.0
CB A:GLU291 4.7 63.1 1.0
C A:THR305 4.8 77.8 1.0
OG1 A:THR305 4.8 84.8 1.0
CB A:GLU235 4.8 74.6 1.0
CE1 A:TYR236 4.9 80.7 1.0
CB A:THR305 4.9 59.8 1.0
N A:ASP306 4.9 84.9 1.0
CG A:GLU291 4.9 79.3 1.0

Calcium binding site 2 out of 5 in 9s0v

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Calcium binding site 2 out of 5 in the The Crystal Structure of Human Tissue Nonspecific Alkaline Phosphatase (Htnap) in Complex with Phosphate


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of The Crystal Structure of Human Tissue Nonspecific Alkaline Phosphatase (Htnap) in Complex with Phosphate within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca604

b:93.0
occ:1.00
 OD1 B:ASP306 2.0 94.4 1.0
OE1 B:GLU235 2.1 106.8 1.0
O B:PHE290 2.2 78.4 1.0
OE2 B:GLU235 2.3 105.7 1.0
CD B:GLU235 2.5 114.4 1.0
CG B:ASP306 2.9 90.8 1.0
OE2 B:GLU291 3.0 94.3 1.0
OD2 B:ASP306 3.2 82.7 1.0
C B:PHE290 3.3 63.1 1.0
CD B:GLU291 3.8 94.2 1.0
O B:TRP270 3.9 63.6 1.0
CG B:GLU235 4.0 104.9 1.0
O B:THR305 4.1 77.5 1.0
CG B:GLU291 4.1 98.2 1.0
CA B:PHE290 4.1 55.0 1.0
CB B:PHE290 4.3 48.0 1.0
N B:GLU291 4.3 54.1 1.0
CB B:ASP306 4.3 93.7 1.0
CB B:THR305 4.3 79.5 1.0
C B:THR305 4.4 68.0 1.0
OH B:TYR236 4.4 115.8 1.0
OG1 B:THR305 4.4 73.9 1.0
CA B:GLU291 4.5 81.3 1.0
NH1 B:ARG223 4.6 70.8 1.0
CA B:ASP306 4.7 87.1 1.0
N B:ASP306 4.7 80.2 1.0
CB B:GLU235 4.7 100.5 1.0
NH2 B:ARG223 4.7 76.4 1.0
OE1 B:GLU291 4.9 108.0 1.0
CB B:GLU291 4.9 101.2 1.0
CA B:THR305 5.0 63.1 1.0
CE1 B:TYR236 5.0 109.5 1.0

Calcium binding site 3 out of 5 in 9s0v

Go back to Calcium Binding Sites List in 9s0v
Calcium binding site 3 out of 5 in the The Crystal Structure of Human Tissue Nonspecific Alkaline Phosphatase (Htnap) in Complex with Phosphate


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of The Crystal Structure of Human Tissue Nonspecific Alkaline Phosphatase (Htnap) in Complex with Phosphate within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca604

b:90.6
occ:1.00
 O C:PHE290 2.2 69.5 1.0
OD1 C:ASP306 2.2 84.8 1.0
OE2 C:GLU235 2.2 87.0 1.0
OE1 C:GLU235 2.3 119.3 1.0
CD C:GLU235 2.6 107.4 1.0
OE1 C:GLU291 2.7 110.0 1.0
CG C:ASP306 3.3 81.8 1.0
C C:PHE290 3.3 68.7 1.0
OD2 C:ASP306 3.8 84.0 1.0
OH C:TYR236 3.8 123.5 1.0
CD C:GLU291 3.9 107.8 1.0
O C:TRP270 4.0 87.8 1.0
CG C:GLU235 4.1 101.5 1.0
CA C:PHE290 4.2 73.2 1.0
O C:THR305 4.2 75.1 1.0
N C:GLU291 4.2 73.6 1.0
NH2 C:ARG223 4.3 69.3 1.0
CA C:GLU291 4.3 76.9 1.0
CB C:PHE290 4.5 65.7 1.0
CB C:ASP306 4.5 90.8 1.0
C C:THR305 4.5 91.0 1.0
CZ C:TYR236 4.6 122.3 1.0
CB C:THR305 4.6 72.2 1.0
OE2 C:GLU291 4.7 101.8 1.0
CA C:ASP306 4.7 89.3 1.0
CB C:GLU291 4.7 86.1 1.0
OG1 C:THR305 4.7 66.2 1.0
N C:ASP306 4.8 97.0 1.0
CB C:GLU235 4.9 99.1 1.0
CG C:GLU291 4.9 89.6 1.0

Calcium binding site 4 out of 5 in 9s0v

Go back to Calcium Binding Sites List in 9s0v
Calcium binding site 4 out of 5 in the The Crystal Structure of Human Tissue Nonspecific Alkaline Phosphatase (Htnap) in Complex with Phosphate


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of The Crystal Structure of Human Tissue Nonspecific Alkaline Phosphatase (Htnap) in Complex with Phosphate within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ca604

b:93.5
occ:1.00
 OD1 D:ASP306 2.1 88.5 1.0
OE1 D:GLU235 2.2 108.3 1.0
O D:PHE290 2.4 92.8 1.0
OE1 D:GLU291 2.5 106.4 1.0
OE2 D:GLU235 2.6 95.5 1.0
OD2 D:ASP306 2.6 96.5 1.0
CG D:ASP306 2.7 64.6 1.0
CD D:GLU235 2.7 108.0 1.0
C D:PHE290 3.6 87.6 1.0
CD D:GLU291 3.7 100.8 1.0
OH D:TYR236 3.9 139.3 1.0
NH2 D:ARG223 4.1 103.4 1.0
CB D:ASP306 4.1 57.7 1.0
CG D:GLU235 4.2 114.2 1.0
OE2 D:GLU291 4.4 111.8 1.0
OG1 D:THR305 4.4 80.2 1.0
CA D:PHE290 4.4 71.9 1.0
CB D:PHE290 4.5 64.7 1.0
N D:GLU291 4.5 85.2 1.0
CB D:THR305 4.5 66.8 1.0
O D:TRP270 4.6 60.6 1.0
CA D:GLU291 4.6 76.3 1.0
O D:THR305 4.6 81.3 1.0
CZ D:TYR236 4.6 110.7 1.0
CB D:GLU291 4.7 79.4 1.0
C D:THR305 4.7 68.8 1.0
CA D:ASP306 4.8 64.6 1.0
CG D:GLU291 4.8 83.9 1.0
CB D:GLU235 4.8 97.8 1.0
CE2 D:TYR236 4.9 101.8 1.0
N D:ASP306 4.9 69.2 1.0

Calcium binding site 5 out of 5 in 9s0v

Go back to Calcium Binding Sites List in 9s0v
Calcium binding site 5 out of 5 in the The Crystal Structure of Human Tissue Nonspecific Alkaline Phosphatase (Htnap) in Complex with Phosphate


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of The Crystal Structure of Human Tissue Nonspecific Alkaline Phosphatase (Htnap) in Complex with Phosphate within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Ca604

b:116.6
occ:1.00
 O E:PHE290 2.2 93.8 1.0
OE1 E:GLU235 2.3 134.7 1.0
OD2 E:ASP306 2.5 104.7 1.0
OE2 E:GLU235 3.0 107.6 1.0
CG E:ASP306 3.0 116.1 1.0
CD E:GLU235 3.0 124.5 1.0
OD1 E:ASP306 3.1 145.9 1.0
C E:PHE290 3.2 81.6 1.0
O E:TRP270 3.3 84.1 1.0
OE1 E:GLU291 3.6 103.2 1.0
CA E:PHE290 3.6 82.3 1.0
NH2 E:ARG223 3.7 104.3 1.0
CB E:PHE290 3.8 73.2 1.0
O E:THR305 3.9 81.0 1.0
CB E:ASP306 4.2 91.3 1.0
N E:GLU291 4.3 67.5 1.0
C E:THR305 4.3 119.3 1.0
CA E:ASP306 4.4 107.4 1.0
CG E:GLU235 4.5 132.2 1.0
C E:TRP270 4.5 94.3 1.0
CA E:ASN271 4.6 122.2 1.0
N E:ASP306 4.6 121.9 1.0
CA E:GLU291 4.7 94.6 1.0
CB E:THR305 4.8 117.5 1.0
CG E:PHE290 4.8 70.9 1.0
CD E:GLU291 4.8 104.1 1.0
CB E:ASN271 4.9 134.6 1.0
CD1 E:PHE290 4.9 92.9 1.0
CE3 E:TRP270 4.9 96.7 1.0
CZ E:ARG223 4.9 96.4 1.0
OG1 E:THR305 4.9 111.0 1.0

Reference:

L.Ballut, S.Violot, I.Imam. The Crystal Structure of Human Tissue Nonspecific Alkaline Phosphatase (Htnap) in Complex with Phosphate To Be Published.
Page generated: Sat Dec 13 13:37:20 2025

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