Atomistry » Magnesium » PDB 5oea-5onv » 5okn
Atomistry »
  Magnesium »
    PDB 5oea-5onv »
      5okn »

Magnesium in PDB 5okn: Crystal Structure of Human SHIP2 Phosphatase-C2 D607A Mutant

Enzymatic activity of Crystal Structure of Human SHIP2 Phosphatase-C2 D607A Mutant

All present enzymatic activity of Crystal Structure of Human SHIP2 Phosphatase-C2 D607A Mutant:
3.1.3.86;

Protein crystallography data

The structure of Crystal Structure of Human SHIP2 Phosphatase-C2 D607A Mutant, PDB code: 5okn was solved by J.Le Coq, D.Lietha, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 49.17 / 2.65
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 137.065, 177.143, 177.371, 90.00, 90.00, 90.00
R / Rfree (%) 20.6 / 24.5

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of Human SHIP2 Phosphatase-C2 D607A Mutant (pdb code 5okn). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 6 binding sites of Magnesium where determined in the Crystal Structure of Human SHIP2 Phosphatase-C2 D607A Mutant, PDB code: 5okn:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6;

Magnesium binding site 1 out of 6 in 5okn

Go back to Magnesium Binding Sites List in 5okn
Magnesium binding site 1 out of 6 in the Crystal Structure of Human SHIP2 Phosphatase-C2 D607A Mutant


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 Human SHIP2 Phosphatase-C2 D607A Mutant within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg902

b:83.0
occ:1.00
 O C:HOH1005 2.2 71.9 1.0
O2 C:PO4901 2.5 0.9 1.0
O C:HOH1015 3.2 48.1 1.0
P C:PO4901 3.9 0.2 1.0
OD1 C:ASN432 3.9 40.4 1.0
CG C:GLU473 4.0 49.5 1.0
NE2 C:HIS718 4.2 40.7 1.0
ND2 C:ASN432 4.2 40.1 1.0
O1 C:PO4901 4.3 0.6 1.0
OD1 C:ASP717 4.3 43.6 1.0
OD2 C:ASP717 4.3 44.5 1.0
CG C:ASN432 4.5 39.9 1.0
O3 C:PO4901 4.5 0.2 1.0
CD C:GLU473 4.6 52.5 1.0
CD2 C:HIS718 4.7 40.8 1.0
CA C:GLY434 4.7 43.6 1.0
CB C:GLU473 4.8 47.8 1.0
CG C:ASP717 4.8 44.0 1.0
OE1 C:GLU473 4.8 55.5 1.0
O4 C:PO4901 5.0 0.5 1.0

Magnesium binding site 2 out of 6 in 5okn

Go back to Magnesium Binding Sites List in 5okn
Magnesium binding site 2 out of 6 in the Crystal Structure of Human SHIP2 Phosphatase-C2 D607A Mutant


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 Human SHIP2 Phosphatase-C2 D607A Mutant within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg902

b:50.6
occ:1.00
 O2 D:PO4901 2.0 61.7 1.0
O D:HOH1002 2.2 55.0 1.0
O D:HOH1021 2.2 51.7 1.0
OE2 D:GLU473 2.4 41.0 1.0
CD D:GLU473 3.2 41.1 1.0
OE1 D:GLU473 3.3 42.3 1.0
P D:PO4901 3.5 62.3 1.0
O D:HOH1034 3.5 56.3 1.0
ND2 D:ASN432 3.9 39.0 1.0
OD2 D:ASP717 3.9 45.6 1.0
NE2 D:HIS718 3.9 39.7 1.0
OD1 D:ASP717 4.0 45.0 1.0
O4 D:PO4901 4.1 60.8 1.0
O3 D:PO4901 4.1 61.3 1.0
OD1 D:ASN432 4.1 40.5 1.0
CG D:ASN432 4.3 39.5 1.0
CG D:ASP717 4.4 45.0 1.0
CD2 D:HIS718 4.4 40.1 1.0
O1 D:PO4901 4.4 61.4 1.0
CG D:GLU473 4.6 40.2 1.0
CE1 D:TYR661 4.7 44.5 1.0

Magnesium binding site 3 out of 6 in 5okn

Go back to Magnesium Binding Sites List in 5okn
Magnesium binding site 3 out of 6 in the Crystal Structure of Human SHIP2 Phosphatase-C2 D607A Mutant


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Crystal Structure of Human SHIP2 Phosphatase-C2 D607A Mutant within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mg902

b:78.9
occ:1.00
 O4 E:PO4901 2.4 0.1 1.0
O E:HOH1028 2.8 53.6 1.0
OE2 E:GLU473 3.1 46.8 1.0
O E:HOH1024 3.2 59.9 1.0
CD E:GLU473 3.4 45.5 1.0
OD1 E:ASN432 3.6 34.6 1.0
CG E:GLU473 3.8 43.1 1.0
P E:PO4901 3.9 0.0 1.0
OE1 E:GLU473 4.0 48.3 1.0
ND2 E:ASN432 4.1 34.3 1.0
CG E:ASN432 4.2 34.1 1.0
OD1 E:ASP717 4.3 38.0 1.0
NE2 E:HIS718 4.4 34.9 1.0
CA E:GLY434 4.5 37.9 1.0
OD2 E:ASP717 4.5 38.2 1.0
O2 E:PO4901 4.6 0.4 1.0
CB E:GLU473 4.6 42.2 1.0
O3 E:PO4901 4.7 0.3 1.0
CD2 E:HIS718 4.7 34.9 1.0
O1 E:PO4901 4.7 0.7 1.0
CG E:ASP717 4.9 37.7 1.0

Magnesium binding site 4 out of 6 in 5okn

Go back to Magnesium Binding Sites List in 5okn
Magnesium binding site 4 out of 6 in the Crystal Structure of Human SHIP2 Phosphatase-C2 D607A Mutant


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Crystal Structure of Human SHIP2 Phosphatase-C2 D607A Mutant within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Mg902

b:58.2
occ:1.00
 O F:HOH1021 1.9 59.1 1.0
O2 F:PO4901 2.3 85.5 1.0
OE2 F:GLU473 2.4 42.1 1.0
CD F:GLU473 3.2 42.2 1.0
OE1 F:GLU473 3.2 43.5 1.0
P F:PO4901 3.6 83.6 1.0
O1 F:PO4901 3.9 85.9 1.0
OD2 F:ASP717 4.0 47.0 1.0
OD1 F:ASN432 4.2 41.5 1.0
ND2 F:ASN432 4.2 40.1 1.0
NE2 F:HIS718 4.3 40.8 1.0
O3 F:PO4901 4.3 82.8 1.0
OD1 F:ASP717 4.4 45.9 1.0
CG F:ASN432 4.6 40.6 1.0
CG F:GLU473 4.6 41.2 1.0
CG F:ASP717 4.6 46.6 1.0
O4 F:PO4901 4.7 84.7 1.0
CD2 F:HIS718 4.7 41.3 1.0

Magnesium binding site 5 out of 6 in 5okn

Go back to Magnesium Binding Sites List in 5okn
Magnesium binding site 5 out of 6 in the Crystal Structure of Human SHIP2 Phosphatase-C2 D607A Mutant


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Crystal Structure of Human SHIP2 Phosphatase-C2 D607A Mutant within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Mg902

b:75.0
occ:1.00
 O4 G:PO4901 1.9 0.8 1.0
O G:HOH1007 2.8 58.5 1.0
P G:PO4901 3.4 0.7 1.0
OE1 G:GLU473 3.7 57.5 1.0
ND2 G:ASN432 3.8 40.1 1.0
OD1 G:ASN432 3.8 40.8 1.0
O1 G:PO4901 4.0 0.8 1.0
CG G:GLU473 4.0 52.7 1.0
NE2 G:HIS718 4.0 39.8 1.0
CG G:ASN432 4.2 40.3 1.0
O2 G:PO4901 4.2 0.7 1.0
O3 G:PO4901 4.3 0.6 1.0
CD G:GLU473 4.3 55.9 1.0
CD2 G:HIS718 4.5 39.7 1.0
OD1 G:ASP717 4.5 42.6 1.0
OD2 G:ASP717 4.8 43.9 1.0
CB G:GLU473 4.9 51.4 1.0

Magnesium binding site 6 out of 6 in 5okn

Go back to Magnesium Binding Sites List in 5okn
Magnesium binding site 6 out of 6 in the Crystal Structure of Human SHIP2 Phosphatase-C2 D607A Mutant


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Crystal Structure of Human SHIP2 Phosphatase-C2 D607A Mutant within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Mg902

b:60.3
occ:1.00
 O2 H:PO4901 2.1 72.8 1.0
O H:HOH1024 2.1 54.1 1.0
OE2 H:GLU473 2.4 47.8 1.0
O H:HOH1006 2.4 62.3 1.0
CD H:GLU473 3.2 47.8 1.0
OE1 H:GLU473 3.3 49.2 1.0
P H:PO4901 3.6 74.3 1.0
ND2 H:ASN432 4.2 43.7 1.0
O3 H:PO4901 4.2 72.0 1.0
O1 H:PO4901 4.3 74.9 1.0
OD1 H:ASP717 4.3 54.3 1.0
OD2 H:ASP717 4.3 54.1 1.0
NE2 H:HIS718 4.4 45.9 1.0
O4 H:PO4901 4.4 71.5 1.0
OD1 H:ASN432 4.4 45.3 1.0
CG H:GLU473 4.7 46.4 1.0
CG H:ASN432 4.7 44.1 1.0
CD2 H:HIS718 4.8 46.5 1.0
CG H:ASP717 4.8 54.0 1.0

Reference:

J.Le Coq, M.Camacho-Artacho, J.V.Velazquez, C.M.Santiveri, L.H.Gallego, R.Campos-Olivas, N.Dolker, D.Lietha. Structural Basis For Interdomain Communication in SHIP2 Providing High Phosphatase Activity. Elife V. 6 2017.
ISSN: ESSN 2050-084X
PubMed: 28792888
DOI: 10.7554/ELIFE.26640
Page generated: Tue Aug 12 17:34:11 2025

Last articles

Mg in 7CJO
Mg in 7CJG
Mg in 7C9R
Mg in 7CJE
Mg in 7CJ5
Mg in 7CJ7
Mg in 7CI4
Mg in 7CI8
Mg in 7CEK
Mg in 7CHW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy