Zinc in PDB 5wy8: Crystal Structure of Ptp Delta IG1-IG3 in Complex with IL1RAPL1 IG1- IG3

All present enzymatic activity of Crystal Structure of Ptp Delta IG1-IG3 in Complex with IL1RAPL1 IG1- IG3:
3.1.3.48;

The structure of Crystal Structure of Ptp Delta IG1-IG3 in Complex with IL1RAPL1 IG1- IG3, PDB code: 5wy8 was solved by H.M.Kim, S.Y.Won, D.Kim, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.89 / 3.07
Space group	P 32 1 2
Cell size a, b, c (Å), α, β, γ (°)	110.416, 110.416, 210.536, 90.00, 90.00, 120.00
R / Rfree (%)	23.3 / 25.5

The binding sites of Zinc atom in the Crystal Structure of Ptp Delta IG1-IG3 in Complex with IL1RAPL1 IG1- IG3 (pdb code 5wy8). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the Crystal Structure of Ptp Delta IG1-IG3 in Complex with IL1RAPL1 IG1- IG3, PDB code: 5wy8:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in the Crystal Structure of Ptp Delta IG1-IG3 in Complex with IL1RAPL1 IG1- IG3


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of Ptp Delta IG1-IG3 in Complex with IL1RAPL1 IG1- IG3 within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn412 b:98.4 occ:1.00 NE2 B:HIS344 1.9 87.2 1.0 CE1 B:HIS344 2.5 80.3 1.0 CD2 B:HIS344 3.0 86.0 1.0 ND1 B:HIS344 3.7 69.2 1.0 CG B:HIS344 3.9 69.3 1.0 NH2 B:ARG342 4.6 0.6 1.0

Zinc binding site 2 out of 3 in the Crystal Structure of Ptp Delta IG1-IG3 in Complex with IL1RAPL1 IG1- IG3


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of Ptp Delta IG1-IG3 in Complex with IL1RAPL1 IG1- IG3 within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn413 b:0.9 occ:1.00 OD1 B:ASP209 3.0 79.2 1.0 CG B:ASP209 3.9 66.3 1.0 OD2 B:ASP209 4.1 71.2 1.0

Zinc binding site 3 out of 3 in the Crystal Structure of Ptp Delta IG1-IG3 in Complex with IL1RAPL1 IG1- IG3


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Crystal Structure of Ptp Delta IG1-IG3 in Complex with IL1RAPL1 IG1- IG3 within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn414 b:62.6 occ:1.00 OE2 B:GLU208 1.8 76.1 1.0 NE2 B:HIS309 2.0 69.8 1.0 OE1 B:GLU208 2.4 88.6 1.0 CD B:GLU208 2.4 74.6 1.0 CE1 B:HIS309 2.6 68.1 1.0 CD2 B:HIS309 3.1 65.1 1.0 ND1 B:HIS309 3.8 68.9 1.0 CG B:GLU208 3.9 56.8 1.0 CG B:HIS309 4.1 63.0 1.0 CD1 B:LEU310 4.2 65.7 1.0 CD2 B:LEU310 4.6 70.4 1.0 CB B:GLU208 4.8 57.0 1.0

S.Y.Won, C.Y.Kim, D.Kim, J.Ko, J.W.Um, S.B.Lee, M.Buck, E.Kim, W.D.Heo, J.O.Lee, H.M.Kim. Lar-Rptp Clustering Is Modulated By Competitive Binding Between Synaptic Adhesion Partners and Heparan Sulfate Front Mol Neurosci V. 10 327 2017.
ISSN: ESSN 1662-5099
PubMed: 29081732
DOI: 10.3389/FNMOL.2017.00327