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Copper in PDB 2r7e: Crystal Structure Analysis of Coagulation Factor VIII

Protein crystallography data

The structure of Crystal Structure Analysis of Coagulation Factor VIII, PDB code: 2r7e was solved by B.L.Stoddard, B.W.Shen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 57.37 / 3.70
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 (%) 27.9 / 34.7

Other elements in 2r7e:

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

Calcium (Ca) 3 atoms

Copper Binding Sites:

The binding sites of Copper atom in the Crystal Structure Analysis of Coagulation Factor VIII (pdb code 2r7e). 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 Analysis of Coagulation Factor VIII, PDB code: 2r7e:
Jump to Copper binding site number: 1; 2;

Copper binding site 1 out of 2 in 2r7e

Go back to Copper Binding Sites List in 2r7e
Copper binding site 1 out of 2 in the Crystal Structure Analysis of Coagulation 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 Analysis of Coagulation Factor VIII within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu2403

b:0.9
occ:1.00
ND1 A:HIS315 2.0 0.7 1.0
ND1 A:HIS267 2.2 0.9 1.0
CD1 A:ILE312 2.3 0.7 1.0
SG A:CYS310 2.3 0.1 1.0
CG A:HIS267 2.3 0.3 1.0
CE1 A:HIS267 2.4 0.2 1.0
CD2 A:HIS267 2.5 0.7 1.0
NE2 A:HIS267 2.6 0.4 1.0
CE1 A:HIS315 2.9 0.3 1.0
CA A:HIS267 2.9 0.8 1.0
CG A:HIS315 3.0 0.1 1.0
CB A:HIS267 3.1 0.1 1.0
CG1 A:ILE312 3.2 0.3 1.0
CB A:HIS315 3.4 0.4 1.0
N A:SER268 3.4 0.6 1.0
C A:HIS267 3.6 0.8 1.0
CB A:CYS310 3.9 0.1 1.0
O A:SER268 3.9 0.6 1.0
NE2 A:HIS315 4.0 0.7 1.0
O A:VAL266 4.1 0.6 1.0
CD2 A:HIS315 4.1 0.9 1.0
N A:HIS267 4.2 0.8 1.0
CB A:ILE312 4.3 0.8 1.0
C A:VAL266 4.5 0.6 1.0
CA A:SER268 4.6 0.6 1.0
O A:HIS267 4.7 0.8 1.0
C A:SER268 4.7 0.6 1.0
CA A:CYS310 4.9 0.2 1.0
CA A:HIS315 4.9 0.6 1.0

Copper binding site 2 out of 2 in 2r7e

Go back to Copper Binding Sites List in 2r7e
Copper binding site 2 out of 2 in the Crystal Structure Analysis of Coagulation 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 Analysis of Coagulation Factor VIII within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cu2404

b:0.3
occ:1.00
SG B:CYS2000 2.3 83.2 1.0
ND1 B:HIS1954 2.3 97.3 1.0
CE1 B:HIS1954 2.6 96.6 1.0
ND1 B:HIS2005 2.6 0.6 1.0
CB B:HIS2005 2.7 0.6 1.0
CD1 B:ILE2002 2.8 0.6 1.0
CB B:ILE2002 3.0 0.2 1.0
CG B:HIS2005 3.0 0.6 1.0
CG2 B:ILE2002 3.2 0.3 1.0
CG1 B:ILE2002 3.3 0.0 1.0
CG B:HIS1954 3.7 98.7 1.0
CB B:CYS2000 3.8 83.3 1.0
CE1 B:HIS2005 3.9 0.6 1.0
NE2 B:HIS1954 3.9 96.9 1.0
CA B:HIS2005 4.0 0.5 1.0
O B:ILE2002 4.2 0.7 1.0
N B:HIS2005 4.2 1.0 1.0
CD2 B:HIS2005 4.3 0.6 1.0
CA B:ILE2002 4.3 0.1 1.0
CD2 B:HIS1954 4.4 97.6 1.0
CB B:HIS1954 4.5 99.9 1.0
CA B:HIS1954 4.5 0.7 1.0
C B:HIS2005 4.6 0.4 1.0
NE2 B:HIS2005 4.7 0.6 1.0
C B:ILE2002 4.8 0.7 1.0
N B:ILE2002 4.8 0.4 1.0
SD B:MET2010 4.8 0.3 1.0
O B:CYS2000 4.9 0.9 1.0
N B:LEU2006 5.0 0.9 1.0

Reference:

B.W.Shen, P.C.Spiegel, C.H.Chang, J.W.Huh, J.S.Lee, J.Kim, Y.H.Kim, B.L.Stoddard. The Tertiary Structure and Domain Organization of Coagulation Factor VIII. Blood V. 111 1240 2008.
ISSN: ISSN 0006-4971
PubMed: 17965321
DOI: 10.1182/BLOOD-2007-08-109918
Page generated: Sun Dec 13 11:06:56 2020

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