Magnesium in PDB 2vsc: Structure of the Immunoglobulin-Superfamily Ectodomain of Human CD47

The structure of Structure of the Immunoglobulin-Superfamily Ectodomain of Human CD47, PDB code: 2vsc was solved by D.Hatherley, S.C.Graham, J.Turner, K.Harlos, D.I.Stuart, A.N.Barclay, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	28.19 / 1.90
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	201.137, 47.502, 56.811, 90.00, 99.31, 90.00
R / Rfree (%)	21.6 / 26.3

The binding sites of Magnesium atom in the Structure of the Immunoglobulin-Superfamily Ectodomain of Human CD47 (pdb code 2vsc). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Structure of the Immunoglobulin-Superfamily Ectodomain of Human CD47, PDB code: 2vsc:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Structure of the Immunoglobulin-Superfamily Ectodomain of Human CD47


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of the Immunoglobulin-Superfamily Ectodomain of Human CD47 within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1120 b:26.3 occ:1.00 O A:HOH2078 2.2 21.9 1.0 O A:HOH2077 2.2 26.2 1.0 O A:HOH2082 2.2 22.1 1.0 O A:HOH2079 2.2 22.2 1.0 O A:HOH2081 2.2 24.1 1.0 O A:HOH2080 2.2 25.2 1.0 O B:LEU101 3.6 17.6 1.0 O A:LEU101 3.7 21.3 1.0 O A:HOH2076 4.2 25.5 1.0 OE2 A:GLU100 4.3 21.9 1.0 CB A:GLU100 4.3 21.1 1.0 OE2 B:GLU100 4.3 22.9 1.0 CD A:ARG103 4.3 24.4 1.0 OE2 B:GLU29 4.4 27.7 1.0 CB B:GLU100 4.4 21.2 1.0 OE1 A:GLU29 4.4 27.4 1.0 O A:GLU100 4.4 22.2 1.0 O B:GLU100 4.4 21.3 1.0 C A:LEU101 4.7 24.1 1.0 C B:LEU101 4.7 20.3 1.0 CG A:ARG103 4.7 25.5 1.0 C B:GLU100 4.7 21.7 1.0 C A:GLU100 4.7 22.5 1.0 NE B:ARG103 4.9 20.9 1.0 CG B:ARG103 4.9 17.9 1.0 OE1 A:GLU35 5.0 32.7 1.0 CD A:GLU100 5.0 21.1 1.0

Magnesium binding site 2 out of 2 in the Structure of the Immunoglobulin-Superfamily Ectodomain of Human CD47


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of the Immunoglobulin-Superfamily Ectodomain of Human CD47 within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg1120 b:25.2 occ:1.00 O C:HOH2119 2.2 25.6 1.0 O C:HOH2122 2.2 22.7 1.0 O C:HOH2120 2.2 24.0 1.0 O C:HOH2123 2.2 22.2 1.0 O C:HOH2121 2.2 24.9 1.0 O C:HOH2124 2.2 23.1 1.0 O C:LEU101 3.7 20.7 1.0 O D:LEU101 3.7 26.2 1.0 O C:HOH2118 4.0 24.3 1.0 O C:HOH2117 4.2 28.1 1.0 CB D:GLU100 4.3 24.5 1.0 OE2 C:GLU29 4.3 36.6 1.0 OE2 C:GLU100 4.3 26.9 1.0 OE2 D:GLU29 4.3 27.4 1.0 CB C:GLU100 4.3 25.1 1.0 OE2 D:GLU100 4.3 20.1 1.0 O D:GLU100 4.5 26.1 1.0 O C:GLU100 4.5 25.8 1.0 C C:LEU101 4.7 23.7 1.0 C D:GLU100 4.7 26.6 1.0 C D:LEU101 4.8 29.2 1.0 C C:GLU100 4.8 24.9 1.0

D.Hatherley, S.C.Graham, J.Turner, K.Harlos, D.I.Stuart, A.N.Barclay. Paired Receptor Specificity Explained By Structures of Signal Regulatory Proteins Alone and Complexed with CD47. Mol.Cell V. 31 266 2008.
ISSN: ISSN 1097-2765
PubMed: 18657508
DOI: 10.1016/J.MOLCEL.2008.05.026