Copper in PDB 3cdz: Crystal Structure of Human Factor VIII

The structure of Crystal Structure of Human Factor VIII, PDB code: 3cdz was solved by J.C.Ngo, M.Huang, D.A.Roth, B.C.Furie, B.Furie, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 3.98
Space group	P 41 21 2
Cell size a, b, c (Å), α, β, γ (°)	134.113, 134.113, 349.760, 90.00, 90.00, 90.00
R / Rfree (%)	25.6 / 32.7

The structure of Crystal Structure of Human Factor VIII also contains other interesting chemical elements:

Calcium

(Ca)

1 atom

The binding sites of Copper atom in the Crystal Structure of Human Factor VIII (pdb code 3cdz). This binding sites where shown within 5.0 Angstroms radius around Copper atom.
In total 2 binding sites of Copper where determined in the Crystal Structure of Human Factor VIII, PDB code: 3cdz:
Jump to Copper binding site number: 1; 2;

Copper binding site 1 out of 2 in the Crystal Structure of Human Factor VIII


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 1 of Crystal Structure of Human Factor VIII within 5.0Å range: probe atom residue distance (Å) B Occ A:Cu757 b:0.3 occ:1.00 SG A:CYS310 1.8 0.5 1.0 ND1 A:HIS267 2.1 0.4 1.0 CG A:HIS315 2.7 0.8 1.0 CB A:HIS315 2.7 0.3 1.0 CE1 A:HIS267 2.7 0.1 1.0 CD2 A:HIS315 3.0 0.4 1.0 CG A:HIS267 3.1 0.0 1.0 ND1 A:HIS315 3.4 0.2 1.0 CB A:CYS310 3.5 0.2 1.0 CB A:HIS267 3.7 0.5 1.0 CE1 A:HIS232 3.7 0.7 1.0 NE2 A:HIS267 3.8 0.2 1.0 NE2 A:HIS315 3.8 0.3 1.0 CD2 A:HIS267 4.0 0.7 1.0 CA A:HIS267 4.0 0.5 1.0 CE1 A:HIS315 4.0 0.3 1.0 SD A:MET320 4.1 0.9 1.0 CA A:HIS315 4.2 0.4 1.0 O A:VAL266 4.2 0.3 1.0 CG1 A:ILE312 4.3 0.2 1.0 NE2 A:HIS232 4.4 0.5 1.0 O A:CYS310 4.4 0.8 1.0 CD1 A:ILE312 4.4 0.4 1.0 CA A:CYS310 4.6 0.1 1.0 ND1 A:HIS232 4.8 1.0 1.0 C A:CYS310 4.8 0.0 1.0 N A:HIS267 4.8 0.9 1.0 C A:HIS315 4.9 0.6 1.0 C A:VAL266 4.9 0.4 1.0

Copper binding site 2 out of 2 in the Crystal Structure of Human Factor VIII


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 2 of Crystal Structure of Human Factor VIII within 5.0Å range: probe atom residue distance (Å) B Occ B:Cu1 b:0.4 occ:1.00 ND1 B:HIS1954 2.0 0.0 1.0 SG B:CYS2000 2.1 0.7 1.0 ND1 B:HIS2005 2.2 0.1 1.0 CG B:HIS1954 2.9 0.0 1.0 CE1 B:HIS1954 2.9 0.0 1.0 CG B:HIS2005 3.0 0.3 1.0 CE1 B:HIS2005 3.1 0.4 1.0 CB B:CYS2000 3.3 1.0 1.0 CB B:HIS1954 3.3 0.2 1.0 CB B:HIS2005 3.4 0.0 1.0 CD1 B:ILE2002 3.5 0.8 1.0 CA B:HIS1954 3.5 0.2 1.0 O B:ILE1953 3.7 0.7 1.0 NE2 B:HIS1954 3.9 0.1 1.0 CD2 B:HIS1954 3.9 0.8 1.0 CD2 B:HIS2005 4.1 0.1 1.0 NE2 B:HIS2005 4.1 0.6 1.0 CE B:MET2010 4.1 0.8 1.0 CG1 B:ILE2002 4.2 0.0 1.0 CB B:ILE2002 4.2 0.5 1.0 N B:SER1955 4.5 0.4 1.0 N B:HIS1954 4.5 0.9 1.0 C B:ILE1953 4.5 0.5 1.0 C B:HIS1954 4.5 0.8 1.0 SD B:MET2010 4.6 1.0 1.0 CA B:CYS2000 4.7 0.8 1.0 CA B:HIS2005 4.9 0.7 1.0 O B:CYS2000 5.0 0.6 1.0 C B:CYS2000 5.0 0.4 1.0

J.C.Ngo, M.Huang, D.A.Roth, B.C.Furie, B.Furie. Crystal Structure of Human Factor VIII: Implications For the Formation of the Factor Ixa-Factor Viiia Complex. Structure V. 16 597 2008.
ISSN: ISSN 0969-2126
PubMed: 18400180
DOI: 10.1016/J.STR.2008.03.001