Zinc in PDB 6mf2: Improved Model of Human Coagulation Factor VIII

The structure of Improved Model of Human Coagulation Factor VIII, PDB code: 6mf2 was solved by I.W.Smith, P.C.Spiegel, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	57.36 / 3.61
Space group	P 41 21 2
Cell size a, b, c (Å), α, β, γ (°)	134.569, 134.569, 359.496, 90.00, 90.00, 90.00
R / Rfree (%)	25.2 / 28.4

The structure of Improved Model of Human Coagulation Factor VIII also contains other interesting chemical elements:

Copper	(Cu)	1 atom
Calcium	(Ca)	1 atom

The binding sites of Zinc atom in the Improved Model of Human Coagulation Factor VIII (pdb code 6mf2). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total only one binding site of Zinc was determined in the Improved Model of Human Coagulation Factor VIII, PDB code: 6mf2:

Zinc binding site 1 out of 1 in the Improved Model of Human Coagulation Factor VIII


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Improved Model of Human Coagulation Factor VIII within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn2411 b:55.1 occ:1.00 ND1 A:HIS317 1.8 36.2 1.0 CE1 A:HIS317 2.4 35.6 1.0 ND1 A:HIS267 2.4 52.3 1.0 CG A:HIS317 2.5 51.1 1.0 CE1 A:HIS267 2.7 54.7 1.0 SG A:CYS310 2.8 34.7 1.0 CG A:MET320 2.9 52.6 1.0 NE2 A:HIS317 3.2 38.8 1.0 CE A:MET320 3.2 33.2 1.0 CB A:HIS317 3.2 69.1 1.0 CD2 A:HIS317 3.3 46.8 1.0 CG A:HIS267 3.4 46.4 1.0 CB A:MET320 3.5 50.7 1.0 SD A:MET320 3.6 50.4 1.0 CB A:CYS310 3.6 32.2 1.0 NE2 A:HIS267 3.6 51.2 1.0 CD2 A:HIS232 3.9 46.5 1.0 CD2 A:HIS267 4.0 47.3 1.0 CB A:HIS267 4.2 46.4 1.0 CA A:HIS317 4.5 74.2 1.0 CG2 A:ILE312 4.6 42.7 1.0 CA A:HIS267 4.6 48.5 1.0 CG A:HIS232 4.7 40.1 1.0 NE2 A:HIS232 4.9 50.0 1.0 CB A:HIS232 4.9 37.5 1.0

I.W.Smith, A.E.D'aquino, C.W.Coyle, A.Fedanov, E.T.Parker, G.Denning, H.T.Spencer, P.Lollar, C.B.Doering, P.C.Spiegel Jr.. The 3.2 Angstrom Structure of A Bioengineered Variant of Blood Coagulation Factor VIII Indicates Two Conformations of the C2 Domain. J.Thromb.Haemost. 2019.
ISSN: ESSN 1538-7836
PubMed: 31454152
DOI: 10.1111/JTH.14621