Nickel in PDB 6m2f: Sirohydrochlorin Nickelochelatase Cfba in Complex with Nickel- Sirohydrochlorin

All present enzymatic activity of Sirohydrochlorin Nickelochelatase Cfba in Complex with Nickel- Sirohydrochlorin:
4.99.1.11; 4.99.1.3;

The structure of Sirohydrochlorin Nickelochelatase Cfba in Complex with Nickel- Sirohydrochlorin, PDB code: 6m2f was solved by T.Fujishiro, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.25 / 2.40
Space group	P 41
Cell size a, b, c (Å), α, β, γ (°)	68.24, 68.24, 82.01, 90, 90, 90
R / Rfree (%)	19 / 22.2

The binding sites of Nickel atom in the Sirohydrochlorin Nickelochelatase Cfba in Complex with Nickel- Sirohydrochlorin (pdb code 6m2f). 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 Sirohydrochlorin Nickelochelatase Cfba in Complex with Nickel- Sirohydrochlorin, PDB code: 6m2f:

Nickel binding site 1 out of 1 in the Sirohydrochlorin Nickelochelatase Cfba in Complex with Nickel- Sirohydrochlorin


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 1 of Sirohydrochlorin Nickelochelatase Cfba in Complex with Nickel- Sirohydrochlorin within 5.0Å range: probe atom residue distance (Å) B Occ B:Ni201 b:183.4 occ:1.00 NI B:F0L201 0.0 183.4 1.0 N16 B:F0L201 2.0 206.4 1.0 N17 B:F0L201 2.0 214.2 1.0 N27 B:F0L201 2.1 168.9 1.0 N14 B:F0L201 2.1 174.4 1.0 C3 B:F0L201 2.9 224.1 1.0 C5 B:F0L201 3.0 213.2 1.0 C18 B:F0L201 3.0 211.1 1.0 C8 B:F0L201 3.0 195.7 1.0 C28 B:F0L201 3.1 156.2 1.0 NE2 B:HIS9 3.1 124.3 1.0 C26 B:F0L201 3.1 170.6 1.0 C13 B:F0L201 3.1 159.9 1.0 C10 B:F0L201 3.1 169.7 1.0 C4 B:F0L201 3.2 211.1 1.0 C25 B:F0L201 3.4 189.2 1.0 C29 B:F0L201 3.4 156.8 1.0 C9 B:F0L201 3.4 179.8 1.0 NE2 A:HIS9 3.5 110.9 1.0 CD2 B:HIS9 3.7 108.3 1.0 C56 B:F0L201 3.7 176.0 1.0 C6 B:F0L201 4.1 202.9 1.0 NE2 B:HIS75 4.1 121.2 1.0 CD2 A:HIS9 4.2 99.6 1.0 C2 B:F0L201 4.2 225.0 1.0 CE1 B:HIS9 4.2 114.6 1.0 C19 B:F0L201 4.3 217.6 1.0 C7 B:F0L201 4.3 196.3 1.0 C30 B:F0L201 4.4 142.7 1.0 C31 B:F0L201 4.4 155.2 1.0 C12 B:F0L201 4.4 145.2 1.0 C11 B:F0L201 4.4 154.9 1.0 C55 B:F0L201 4.5 193.3 1.0 CE1 A:HIS9 4.5 102.6 1.0 NE2 A:HIS75 4.6 107.6 1.0 C1 B:F0L201 4.6 219.2 1.0 CD2 B:HIS75 4.7 115.4 1.0 C57 B:F0L201 4.9 170.6 1.0 C50 B:F0L201 5.0 197.7 1.0 CG B:HIS9 5.0 96.7 1.0

T.Fujishiro, S.Ogawa. The Nickel-Sirohydrochlorin Formation Mechanismof the Ancestral Class II Chelatase Cfba in COENZYMEF430 Biosynthesis Chem Sci 2021.
ISSN: ESSN 2041-6539
DOI: 10.1039/D0SC05439A