Nickel in PDB 6btx: Structure of A Bacterial Metal Transporter

The structure of Structure of A Bacterial Metal Transporter, PDB code: 6btx was solved by M.Jormakka, C.N.Deshpande, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	42.90 / 3.20
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	57.072, 54.109, 72.442, 90.00, 103.60, 90.00
R / Rfree (%)	22.3 / 25.5

The structure of Structure of A Bacterial Metal Transporter also contains other interesting chemical elements:

Calcium

(Ca)

1 atom

The binding sites of Nickel atom in the Structure of A Bacterial Metal Transporter (pdb code 6btx). 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 Structure of A Bacterial Metal Transporter, PDB code: 6btx:

Nickel binding site 1 out of 1 in the Structure of A Bacterial Metal Transporter


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 1 of Structure of A Bacterial Metal Transporter within 5.0Å range: probe atom residue distance (Å) B Occ A:Ni504 b:39.4 occ:1.00 NE2 A:HIS261 1.9 39.5 1.0 N8 A:EDT503 2.0 42.1 1.0 C6 A:EDT503 2.4 43.6 1.0 O13 A:EDT503 2.5 38.1 1.0 O18 A:EDT503 2.5 42.5 1.0 N3 A:EDT503 2.6 43.4 1.0 C7 A:EDT503 2.7 43.3 1.0 CE1 A:HIS261 2.7 37.6 1.0 C9 A:EDT503 2.9 41.2 1.0 C12 A:EDT503 3.0 39.3 1.0 C11 A:EDT503 3.0 41.1 1.0 CD2 A:HIS261 3.0 38.7 1.0 O15 A:EDT503 3.3 40.6 1.0 C1 A:EDT503 3.3 44.0 1.0 C10 A:EDT503 3.4 40.4 1.0 O20 A:EDT503 3.4 39.6 1.0 C2 A:EDT503 3.4 43.9 1.0 C4 A:EDT503 3.8 43.2 1.0 ND1 A:HIS261 3.8 34.9 1.0 C5 A:EDT503 3.9 41.0 1.0 CG A:HIS261 4.0 35.3 1.0 O14 A:EDT503 4.1 39.1 1.0 OG A:SER259 4.2 37.8 1.0 O16 A:EDT503 4.3 39.6 1.0 CB A:SER259 4.4 36.2 1.0 O17 A:EDT503 4.5 45.6 1.0 NH2 A:ARG348 4.7 37.7 1.0 O19 A:EDT503 5.0 41.0 1.0

C.N.Deshpande, T.A.Ruwe, A.Shawki, V.Xin, K.R.Vieth, E.V.Valore, B.Qiao, T.Ganz, E.Nemeth, B.Mackenzie, M.Jormakka. Calcium Is An Essential Cofactor For Metal Efflux By the Ferroportin Transporter Family. Nat Commun V. 9 3075 2018.
ISSN: ESSN 2041-1723
PubMed: 30082682
DOI: 10.1038/S41467-018-05446-4