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Calcium in PDB 5dlt: Crystal Structure of Autotaxin (ENPP2) with 7-Alpha-Hydroxycholesterol

Enzymatic activity of Crystal Structure of Autotaxin (ENPP2) with 7-Alpha-Hydroxycholesterol

All present enzymatic activity of Crystal Structure of Autotaxin (ENPP2) with 7-Alpha-Hydroxycholesterol:
3.1.4.39;

Protein crystallography data

The structure of Crystal Structure of Autotaxin (ENPP2) with 7-Alpha-Hydroxycholesterol, PDB code: 5dlt was solved by J.Hausmann, R.P.Joosten, A.Perrakis, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 44.02 / 1.60
Space group P 1
Cell size a, b, c (Å), α, β, γ (°) 53.671, 63.482, 70.715, 98.72, 105.80, 99.97
R / Rfree (%) 17.1 / 19.6

Other elements in 5dlt:

The structure of Crystal Structure of Autotaxin (ENPP2) with 7-Alpha-Hydroxycholesterol also contains other interesting chemical elements:

Zinc (Zn) 2 atoms
Iodine (I) 10 atoms
Sodium (Na) 2 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the Crystal Structure of Autotaxin (ENPP2) with 7-Alpha-Hydroxycholesterol (pdb code 5dlt). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total only one binding site of Calcium was determined in the Crystal Structure of Autotaxin (ENPP2) with 7-Alpha-Hydroxycholesterol, PDB code: 5dlt:

Calcium binding site 1 out of 1 in 5dlt

Go back to Calcium Binding Sites List in 5dlt
Calcium binding site 1 out of 1 in the Crystal Structure of Autotaxin (ENPP2) with 7-Alpha-Hydroxycholesterol


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 Autotaxin (ENPP2) with 7-Alpha-Hydroxycholesterol within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca907

b:16.9
occ:1.00
 OD1 A:ASP747 2.3 19.8 1.0
OD1 A:ASP739 2.3 16.0 1.0
OD1 A:ASN741 2.3 20.1 1.0
O A:HOH1318 2.3 21.5 1.0
O A:LEU745 2.4 17.2 1.0
OD1 A:ASP743 2.4 17.5 1.0
CG A:ASP743 3.3 18.2 1.0
CG A:ASN741 3.4 22.8 1.0
CG A:ASP739 3.4 16.1 1.0
C A:LEU745 3.5 16.9 1.0
CG A:ASP747 3.5 20.4 1.0
OD2 A:ASP743 3.7 20.1 1.0
ND2 A:ASN741 3.9 24.7 1.0
CA A:ASP739 3.9 17.4 1.0
N A:ASP747 4.0 19.0 1.0
C A:ARG746 4.1 18.1 1.0
CA A:ASP747 4.1 19.7 1.0
N A:LEU745 4.1 15.2 1.0
CB A:ASP739 4.2 16.3 1.0
CA A:LEU745 4.2 16.6 1.0
N A:ASP743 4.3 17.8 1.0
O A:ARG746 4.3 17.2 1.0
OD2 A:ASP739 4.4 14.7 1.0
O A:PHE738 4.4 16.9 1.0
CB A:LEU745 4.4 18.3 1.0
OD2 A:ASP747 4.4 20.8 1.0
CB A:ASP747 4.4 20.2 1.0
C A:ASP739 4.4 18.1 1.0
N A:ARG746 4.5 16.8 1.0
N A:ASN741 4.5 21.3 1.0
CB A:ASP743 4.5 18.1 1.0
OE1 A:GLU751 4.6 28.6 1.0
CB A:ASN741 4.7 21.4 1.0
CA A:ARG746 4.7 19.0 1.0
N A:TYR740 4.7 18.8 1.0
N A:TYR742 4.8 18.3 1.0
CA A:ASP743 4.8 17.4 1.0
C A:ASN741 4.9 20.1 1.0
CA A:ASN741 4.9 21.1 1.0
N A:GLY744 4.9 15.5 1.0

Reference:

W.J.Keune, J.Hausmann, R.Bolier, D.Tolenaars, A.Kremer, T.Heidebrecht, R.P.Joosten, M.Sunkara, A.J.Morris, E.Matas-Rico, W.H.Moolenaar, R.P.Oude Elferink, A.Perrakis. Steroid Binding to Autotaxin Links Bile Salts and Lysophosphatidic Acid Signalling. Nat Commun V. 7 11248 2016.
ISSN: ESSN 2041-1723
PubMed: 27075612
DOI: 10.1038/NCOMMS11248
Page generated: Sat Dec 12 05:22:00 2020

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