Sodium in PDB 2v5y: Crystal Structure of the Receptor Protein Tyrosine Phosphatase Mu Ectodomain

All present enzymatic activity of Crystal Structure of the Receptor Protein Tyrosine Phosphatase Mu Ectodomain:
3.1.3.48;

The structure of Crystal Structure of the Receptor Protein Tyrosine Phosphatase Mu Ectodomain, PDB code: 2v5y was solved by A.R.Aricescu, C.Siebold, K.Choudhuri, V.T.Chang, W.Lu, S.J.Davis, P.A.Van Der Merwe, E.Y.Jones, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20.00 / 3.10
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	167.336, 69.325, 97.487, 90.00, 113.52, 90.00
R / Rfree (%)	24.2 / 32

The binding sites of Sodium atom in the Crystal Structure of the Receptor Protein Tyrosine Phosphatase Mu Ectodomain (pdb code 2v5y). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Crystal Structure of the Receptor Protein Tyrosine Phosphatase Mu Ectodomain, PDB code: 2v5y:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Crystal Structure of the Receptor Protein Tyrosine Phosphatase Mu Ectodomain


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of the Receptor Protein Tyrosine Phosphatase Mu Ectodomain within 5.0Å range: probe atom residue distance (Å) B Occ A:Na1576 b:39.0 occ:1.00 OD1 A:ASP24 2.4 42.2 1.0 OD1 A:ASN27 2.5 37.3 1.0 OD2 A:ASP24 2.8 42.7 1.0 O A:PHE26 2.9 38.8 1.0 CG A:ASP24 3.0 42.5 1.0 O A:SER21 3.3 43.6 1.0 CG A:ASN27 3.6 37.2 1.0 C A:SER21 3.7 43.5 1.0 C A:PHE26 3.8 38.7 1.0 OE1 A:GLN20 3.8 40.6 1.0 N A:SER21 4.0 41.8 1.0 CB A:GLN20 4.0 40.2 1.0 O A:HIS63 4.0 24.2 1.0 CA A:ASN27 4.0 37.0 1.0 N A:GLU22 4.2 44.2 1.0 CA A:GLU22 4.2 44.7 1.0 N A:HIS63 4.2 24.8 1.0 N A:ASN27 4.3 37.7 1.0 C A:GLN20 4.3 40.8 1.0 CB A:ASN27 4.4 37.0 1.0 CA A:SER21 4.4 42.7 1.0 CB A:ASP24 4.5 42.4 1.0 ND2 A:ASN27 4.5 37.2 1.0 CA A:GLN20 4.5 39.8 1.0 CD A:GLN20 4.8 40.6 1.0 CA A:PHE26 4.9 39.5 1.0 CA A:ALA62 4.9 26.9 1.0 C A:GLU22 4.9 44.5 1.0 C A:HIS63 4.9 23.8 1.0 N A:ASP24 4.9 43.1 1.0 N A:PHE26 4.9 40.0 1.0 O A:GLN20 5.0 40.8 1.0 CB A:SER21 5.0 42.8 1.0 CG A:GLN20 5.0 40.4 1.0

Sodium binding site 2 out of 2 in the Crystal Structure of the Receptor Protein Tyrosine Phosphatase Mu Ectodomain


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Crystal Structure of the Receptor Protein Tyrosine Phosphatase Mu Ectodomain within 5.0Å range: probe atom residue distance (Å) B Occ A:Na1577 b:31.5 occ:1.00 OD1 A:ASP153 2.6 29.7 1.0 O A:LEU8 2.6 32.9 1.0 OG A:SER47 2.6 42.3 1.0 O A:SER47 2.7 42.0 1.0 O A:ASP153 3.1 29.8 1.0 CG A:ASP153 3.6 29.8 1.0 C A:LEU8 3.7 33.0 1.0 C A:SER47 3.8 42.0 1.0 CB A:SER47 3.9 42.3 1.0 OD2 A:ASP153 4.0 30.2 1.0 CA A:LEU8 4.1 33.2 1.0 N A:SER47 4.2 42.7 1.0 CA A:SER47 4.2 42.3 1.0 C A:ASP153 4.2 29.5 1.0 CB A:LEU8 4.2 32.8 1.0 OD1 A:ASP10 4.4 30.8 1.0 CB A:ASP153 4.8 29.7 1.0 CB A:GLU154 4.8 29.8 1.0 N A:PHE9 4.8 32.9 1.0 CA A:ASP153 4.9 29.3 1.0 CD2 A:LEU8 4.9 32.5 1.0 CG A:ASP10 5.0 31.0 1.0 N A:PHE48 5.0 41.4 1.0

A.R.Aricescu, C.Siebold, K.Choudhuri, V.T.Chang, W.Lu, S.J.Davis, P.A.Van Der Merwe, E.Y.Jones. Structure of A Tyrosine Phosphatase Adhesive Interaction Reveals A Spacer-Clamp Mechanism. Science V. 317 1217 2007.
ISSN: ISSN 0036-8075
PubMed: 17761881
DOI: 10.1126/SCIENCE.1144646