Nickel in PDB 5hma: Crystal Structure of Mamo Protease Domain From Magnetospirillum Magneticum (Ni Bound Form)

The structure of Crystal Structure of Mamo Protease Domain From Magnetospirillum Magneticum (Ni Bound Form), PDB code: 5hma was solved by D.M.Hershey, X.Ren, J.H.Hurley, A.Komeili, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	45.67 / 2.30
Space group	P 4 3 2
Cell size a, b, c (Å), α, β, γ (°)	129.163, 129.163, 129.163, 90.00, 90.00, 90.00
R / Rfree (%)	18.4 / 20.9

The structure of Crystal Structure of Mamo Protease Domain From Magnetospirillum Magneticum (Ni Bound Form) also contains other interesting chemical elements:

Chlorine

(Cl)

1 atom

The binding sites of Nickel atom in the Crystal Structure of Mamo Protease Domain From Magnetospirillum Magneticum (Ni Bound Form) (pdb code 5hma). 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 Crystal Structure of Mamo Protease Domain From Magnetospirillum Magneticum (Ni Bound Form), PDB code: 5hma:

Nickel binding site 1 out of 1 in the Crystal Structure of Mamo Protease Domain From Magnetospirillum Magneticum (Ni Bound Form)


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 1 of Crystal Structure of Mamo Protease Domain From Magnetospirillum Magneticum (Ni Bound Form) within 5.0Å range: probe atom residue distance (Å) B Occ A:Ni301 b:95.9 occ:1.00 NE2 A:HIS219 2.2 75.7 1.0 O A:HOH434 2.2 79.3 1.0 O A:HOH438 2.2 79.3 1.0 NE2 A:HIS104 2.2 94.2 1.0 O A:HOH432 2.2 83.3 1.0 CE1 A:HIS219 2.6 86.0 1.0 CE1 A:HIS104 3.2 74.0 1.0 CD2 A:HIS104 3.2 82.7 1.0 CD2 A:HIS219 3.4 83.2 1.0 ND1 A:HIS219 3.9 93.0 1.0 CG A:HIS219 4.3 83.2 1.0 ND1 A:HIS104 4.3 73.1 1.0 CG A:HIS104 4.3 75.8 1.0 CL A:CL302 4.7 81.5 1.0

D.M.Hershey, X.Ren, R.A.Melnyk, P.J.Browne, E.Ozyamak, S.R.Jones, M.C.Chang, J.H.Hurley, A.Komeili. Mamo Is A Repurposed Serine Protease That Promotes Magnetite Biomineralization Through Direct Transition Metal Binding in Magnetotactic Bacteria. Plos Biol. V. 14 02402 2016.
ISSN: ESSN 1545-7885
PubMed: 26981620
DOI: 10.1371/JOURNAL.PBIO.1002402