Nickel in PDB 5q2d: Pandda Analysis Group Deposition -- Crystal Structure of DCLRE1A After Initial Refinement with No Ligand Modelled (Structure 5)

The structure of Pandda Analysis Group Deposition -- Crystal Structure of DCLRE1A After Initial Refinement with No Ligand Modelled (Structure 5), PDB code: 5q2d was solved by J.A.Newman, H.Aitkenhead, S.Y.Lee, K.Kupinska, N.Burgess-Brown, R.Tallon, T.Krojer, F.Von Delft, C.H.Arrowsmith, A.Edwards, C.Bountra, O.Gileadi, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	57.60 / 1.40
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	52.260, 57.350, 115.210, 90.00, 90.00, 90.00
R / Rfree (%)	22.2 / 24.6

The binding sites of Nickel atom in the Pandda Analysis Group Deposition -- Crystal Structure of DCLRE1A After Initial Refinement with No Ligand Modelled (Structure 5) (pdb code 5q2d). 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 Pandda Analysis Group Deposition -- Crystal Structure of DCLRE1A After Initial Refinement with No Ligand Modelled (Structure 5), PDB code: 5q2d:

Nickel binding site 1 out of 1 in the Pandda Analysis Group Deposition -- Crystal Structure of DCLRE1A After Initial Refinement with No Ligand Modelled (Structure 5)


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 1 of Pandda Analysis Group Deposition -- Crystal Structure of DCLRE1A After Initial Refinement with No Ligand Modelled (Structure 5) within 5.0Å range: probe atom residue distance (Å) B Occ A:Ni1102 b:13.0 occ:1.00 O8 A:MLI1101 2.0 15.5 1.0 O7 A:MLI1101 2.1 16.9 1.0 OD2 A:ASP815 2.2 14.4 1.0 ND1 A:HIS734 2.2 14.2 1.0 NE2 A:HIS732 2.2 12.6 1.0 NE2 A:HIS793 2.2 10.1 1.0 C3 A:MLI1101 3.0 27.7 1.0 CE1 A:HIS734 3.1 12.2 1.0 CE1 A:HIS793 3.1 9.7 1.0 CD2 A:HIS732 3.1 10.5 1.0 C2 A:MLI1101 3.1 23.7 1.0 CE1 A:HIS732 3.2 12.1 1.0 CG A:ASP815 3.3 13.8 1.0 CG A:HIS734 3.3 13.8 1.0 CD2 A:HIS793 3.3 10.3 1.0 C1 A:MLI1101 3.5 25.5 1.0 CB A:ASP815 3.6 11.6 1.0 CB A:HIS734 3.7 13.4 1.0 O9 A:MLI1101 4.2 31.0 1.0 NE2 A:HIS734 4.2 13.1 1.0 O6 A:MLI1101 4.2 22.0 1.0 ND1 A:HIS793 4.3 10.2 1.0 CG A:HIS732 4.3 10.9 1.0 ND1 A:HIS732 4.3 11.8 1.0 NE2 A:HIS737 4.3 18.7 1.0 CD2 A:HIS734 4.3 13.5 1.0 OD1 A:ASP815 4.4 15.8 1.0 CD2 A:HIS737 4.4 17.9 1.0 CG A:HIS793 4.4 8.7 1.0 CE1 A:HIS994 4.6 10.5 1.0 NE2 A:HIS994 4.7 12.7 1.0 O A:HOH1388 5.0 19.2 1.0

J.A.Newman, H.Aitkenhead, S.Y.Lee, K.Kupinska, N.Burgess-Brown, R.Tallon, T.Krojer, F.Von Delft, C.H.Arrowsmith, A.Edwards, C.Bountra, O.Gileadi. Pandda Analysis Group Deposition To Be Published.