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Calcium in PDB 5paf: Crystal Structure of Factor Viia in Complex with N-(2-Amino-1H- Benzimidazol-5-Yl)-2-[3-[(2-Amino-2-Oxoethyl)-Methylsulfonylamino]-5- Chlorophenyl]Acetamide;2,2,2-Trifluoroacetic Acid

Enzymatic activity of Crystal Structure of Factor Viia in Complex with N-(2-Amino-1H- Benzimidazol-5-Yl)-2-[3-[(2-Amino-2-Oxoethyl)-Methylsulfonylamino]-5- Chlorophenyl]Acetamide;2,2,2-Trifluoroacetic Acid

All present enzymatic activity of Crystal Structure of Factor Viia in Complex with N-(2-Amino-1H- Benzimidazol-5-Yl)-2-[3-[(2-Amino-2-Oxoethyl)-Methylsulfonylamino]-5- Chlorophenyl]Acetamide;2,2,2-Trifluoroacetic Acid:
3.4.21.21;

Protein crystallography data

The structure of Crystal Structure of Factor Viia in Complex with N-(2-Amino-1H- Benzimidazol-5-Yl)-2-[3-[(2-Amino-2-Oxoethyl)-Methylsulfonylamino]-5- Chlorophenyl]Acetamide;2,2,2-Trifluoroacetic Acid, PDB code: 5paf was solved by M.Stihle, A.Mayweg, S.Roever, M.G.Rudolph, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 30.57 / 1.50
Space group P 41 21 2
Cell size a, b, c (Å), α, β, γ (°) 95.050, 95.050, 116.660, 90.00, 90.00, 90.00
R / Rfree (%) 16.5 / 18.5

Other elements in 5paf:

The structure of Crystal Structure of Factor Viia in Complex with N-(2-Amino-1H- Benzimidazol-5-Yl)-2-[3-[(2-Amino-2-Oxoethyl)-Methylsulfonylamino]-5- Chlorophenyl]Acetamide;2,2,2-Trifluoroacetic Acid also contains other interesting chemical elements:

Fluorine (F) 3 atoms
Chlorine (Cl) 2 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the Crystal Structure of Factor Viia in Complex with N-(2-Amino-1H- Benzimidazol-5-Yl)-2-[3-[(2-Amino-2-Oxoethyl)-Methylsulfonylamino]-5- Chlorophenyl]Acetamide;2,2,2-Trifluoroacetic Acid (pdb code 5paf). 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 Factor Viia in Complex with N-(2-Amino-1H- Benzimidazol-5-Yl)-2-[3-[(2-Amino-2-Oxoethyl)-Methylsulfonylamino]-5- Chlorophenyl]Acetamide;2,2,2-Trifluoroacetic Acid, PDB code: 5paf:

Calcium binding site 1 out of 1 in 5paf

Go back to Calcium Binding Sites List in 5paf
Calcium binding site 1 out of 1 in the Crystal Structure of Factor Viia in Complex with N-(2-Amino-1H- Benzimidazol-5-Yl)-2-[3-[(2-Amino-2-Oxoethyl)-Methylsulfonylamino]-5- Chlorophenyl]Acetamide;2,2,2-Trifluoroacetic Acid


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 Factor Viia in Complex with N-(2-Amino-1H- Benzimidazol-5-Yl)-2-[3-[(2-Amino-2-Oxoethyl)-Methylsulfonylamino]-5- Chlorophenyl]Acetamide;2,2,2-Trifluoroacetic Acid within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca501

b:29.9
occ:1.00
 OE1 B:GLU270 2.4 17.6 1.0
O B:GLU275 2.4 23.9 1.0
O B:ASP272 2.6 16.7 1.0
OE2 B:GLU280 2.6 19.2 1.0
O B:HOH802 2.6 26.9 1.0
O B:HOH641 2.9 25.6 1.0
CD B:GLU270 3.4 17.2 1.0
C B:GLU275 3.5 21.2 1.0
C B:ASP272 3.6 15.6 1.0
OE2 B:GLU270 3.7 17.6 1.0
CD B:GLU280 3.7 17.0 1.0
O B:HOH705 3.7 18.6 1.0
N B:ASP272 3.9 16.2 1.0
CG B:GLU280 3.9 14.8 1.0
CG B:GLU275 4.3 28.7 1.0
CA B:HIS276 4.3 20.4 1.0
CA B:ASP272 4.3 17.7 1.0
N B:HIS276 4.3 19.4 1.0
O B:HOH603 4.3 39.7 1.0
N B:HIS271 4.3 13.7 1.0
N B:GLU275 4.4 19.8 1.0
N B:ASP277 4.5 16.9 1.0
N B:LEU273 4.5 16.6 1.0
CA B:GLU275 4.5 21.3 1.0
CB B:ASP272 4.7 17.8 1.0
CG B:GLU270 4.7 17.8 1.0
CA B:LEU273 4.7 18.5 1.0
O B:HOH642 4.8 23.9 1.0
OD1 B:ASP277 4.8 17.6 1.0
OE1 B:GLU280 4.8 17.1 1.0
C B:HIS276 4.8 22.1 1.0
O B:HOH819 4.8 32.7 1.0
C B:HIS271 4.8 14.4 1.0
CG B:ASP277 4.9 17.3 1.0
CB B:GLU275 5.0 24.2 1.0
CA B:GLU270 5.0 13.9 1.0

Reference:

A.Mayweg, S.Roever, M.G.Rudolph. Crystal Structure of A Factor Viia Complex To Be Published.
Page generated: Mon Jul 15 10:02:11 2024

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