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Calcium in PDB 4bdv: Crystal Structure of A Truncated B-Domain Human Factor VIII

Protein crystallography data

The structure of Crystal Structure of A Truncated B-Domain Human Factor VIII, PDB code: 4bdv was solved by L.A.Svensson, L.Thim, O.H.Olsen, E.M.Nicolaisen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 3.98
Space group P 41 21 2
Cell size a, b, c (Å), α, β, γ (°) 133.840, 133.840, 355.810, 90.00, 90.00, 90.00
R / Rfree (%) 16.2 / 24.6

Other elements in 4bdv:

The structure of Crystal Structure of A Truncated B-Domain Human Factor VIII also contains other interesting chemical elements:

Copper (Cu) 1 atom
Zinc (Zn) 1 atom

Calcium Binding Sites:

The binding sites of Calcium atom in the Crystal Structure of A Truncated B-Domain Human Factor VIII (pdb code 4bdv). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total only one binding site of Calcium was determined in the Crystal Structure of A Truncated B-Domain Human Factor VIII, PDB code: 4bdv:

Calcium binding site 1 out of 1 in 4bdv

Go back to Calcium Binding Sites List in 4bdv
Calcium binding site 1 out of 1 in the Crystal Structure of A Truncated B-Domain Human Factor VIII


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Crystal Structure of A Truncated B-Domain Human Factor VIII within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca801

b:0.4
occ:1.00
O A:LYS107 2.3 0.0 1.0
OD1 A:ASP126 2.3 0.6 1.0
OD2 A:ASP125 2.3 0.6 1.0
OD2 A:ASP116 2.3 0.0 1.0
OD1 A:ASP125 2.9 0.5 1.0
CG A:ASP125 3.0 0.1 1.0
CG A:ASP126 3.1 0.2 1.0
O A:GLU122 3.3 0.5 1.0
OD2 A:ASP126 3.3 0.8 1.0
C A:LYS107 3.3 0.8 1.0
CG A:ASP116 3.6 0.4 1.0
O A:SER109 3.8 0.4 1.0
OE1 A:GLU110 3.8 0.1 1.0
O A:ALA112 4.2 0.3 1.0
CA A:LYS107 4.2 0.5 1.0
OD1 A:ASP116 4.2 0.2 1.0
N A:ALA108 4.2 0.4 1.0
CB A:LYS107 4.3 0.9 1.0
CA A:ALA108 4.3 0.3 1.0
C A:GLU122 4.4 0.2 1.0
CB A:ASP125 4.5 0.4 1.0
CB A:ASP126 4.5 0.3 1.0
CA A:LYS123 4.6 0.8 1.0
N A:ASP126 4.6 0.5 1.0
CB A:ASP116 4.7 0.7 1.0
N A:GLY111 4.7 0.8 1.0
CA A:ASP126 4.8 0.9 1.0
N A:ALA112 4.9 0.9 1.0
CG A:LYS123 4.9 0.3 1.0
CD A:GLU110 4.9 0.9 1.0
CG A:LYS107 5.0 0.9 1.0
CE A:LYS107 5.0 0.7 1.0
C A:SER109 5.0 0.8 1.0
N A:LYS123 5.0 0.8 1.0

Reference:

L.A.Svensson, L.Thim, O.H.Olsen, E.M.Nicolaisen. Evaluation of the Metal Binding Sites in A Recombinant Coagulation Factor VIII Identifies Two Sites with Unique Metal Binding Properties. Biol.Chem. V. 394 761 2013.
ISSN: ISSN 1431-6730
PubMed: 23435097
DOI: 10.1515/HSZ-2012-0298
Page generated: Sat Dec 12 04:41:00 2020

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