Nickel in PDB 2d58: Human Microglia-Specific Protein IBA1

The structure of Human Microglia-Specific Protein IBA1, PDB code: 2d58 was solved by S.Kamitori, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	31.24 / 1.90
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	60.748, 36.617, 44.024, 90.00, 99.71, 90.00
R / Rfree (%)	19.5 / 24.9

The binding sites of Nickel atom in the Human Microglia-Specific Protein IBA1 (pdb code 2d58). This binding sites where shown within 5.0 Angstroms radius around Nickel atom.
In total only one binding site of Nickel was determined in the Human Microglia-Specific Protein IBA1, PDB code: 2d58:

Nickel binding site 1 out of 1 in the Human Microglia-Specific Protein IBA1


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 1 of Human Microglia-Specific Protein IBA1 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ni201 b:17.8 occ:1.00 O A:HOH355 2.1 23.9 1.0 O A:HOH312 2.1 12.7 1.0 O A:HOH331 2.2 18.1 1.0 O A:HOH305 2.2 10.0 1.0 OD2 A:ASP66 2.2 10.0 1.0 O A:HOH343 2.2 17.4 1.0 CG A:ASP66 3.1 12.7 1.0 OD1 A:ASP66 3.3 6.9 1.0 O A:HOH401 3.8 47.2 1.0 O A:HOH309 4.1 11.2 1.0 O A:HOH326 4.3 25.0 1.0 O A:HOH302 4.3 11.8 1.0 O A:HOH319 4.3 21.7 1.0 CB A:ASP66 4.5 9.4 1.0 CB A:ASN60 4.8 13.2 1.0

M.Yamada, K.Ohsawa, Y.Imai, S.Kohsaka, S.Kamitori. X-Ray Structures of the Microglia/Macrophage-Specific Protein IBA1 From Human and Mouse Demonstrate Novel Molecular Conformation Change Induced By Calcium Binding J.Mol.Biol. V. 364 449 2006.
ISSN: ISSN 0022-2836
PubMed: 17011575
DOI: 10.1016/J.JMB.2006.09.027