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Fluorine in PDB 5a0a: Crystal Structure of Human Neutrophil Elastase in Complex with A Dihydropyrimidone Inhibitor

Enzymatic activity of Crystal Structure of Human Neutrophil Elastase in Complex with A Dihydropyrimidone Inhibitor

All present enzymatic activity of Crystal Structure of Human Neutrophil Elastase in Complex with A Dihydropyrimidone Inhibitor:
3.4.21.37;

Protein crystallography data

The structure of Crystal Structure of Human Neutrophil Elastase in Complex with A Dihydropyrimidone Inhibitor, PDB code: 5a0a was solved by F.Vonnussbaum, V.M.-J.Li, S.Allerheiligen, S.Anlauf, L.Baerfacker, M.Bechem, M.Delbeck, M.F.Fitzgerald, M.Gerisch, H.Gielen-Haertwig, H.Haning, D.Karthaus, D.Lang, K.Lustig, D.Meibom, J.Mittendorf, U.Rosentreter, M.Schaefer, S.Schaefer, J.Schamberger, L.A.Telan, A.Tersteegen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 63.25 / 1.78
Space group P 63
Cell size a, b, c (Å), α, β, γ (°) 72.712, 72.712, 69.583, 90.00, 90.00, 120.00
R / Rfree (%) 17 / 20.4

Fluorine Binding Sites:

The binding sites of Fluorine atom in the Crystal Structure of Human Neutrophil Elastase in Complex with A Dihydropyrimidone Inhibitor (pdb code 5a0a). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total 3 binding sites of Fluorine where determined in the Crystal Structure of Human Neutrophil Elastase in Complex with A Dihydropyrimidone Inhibitor, PDB code: 5a0a:
Jump to Fluorine binding site number: 1; 2; 3;

Fluorine binding site 1 out of 3 in 5a0a

Go back to Fluorine Binding Sites List in 5a0a
Fluorine binding site 1 out of 3 in the Crystal Structure of Human Neutrophil Elastase in Complex with A Dihydropyrimidone Inhibitor


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 1 of Crystal Structure of Human Neutrophil Elastase in Complex with A Dihydropyrimidone Inhibitor within 5.0Å range:
probe atom residue distance (Å) B Occ
E:F1244

b:25.9
occ:1.00
F25 E:JJS1244 0.0 25.9 1.0
C24 E:JJS1244 1.3 25.8 1.0
F26 E:JJS1244 2.1 22.9 1.0
F27 E:JJS1244 2.2 26.4 1.0
C20 E:JJS1244 2.4 23.9 1.0
C21 E:JJS1244 2.8 24.3 1.0
N E:SER195 3.2 22.7 1.0
CB E:ALA213 3.5 21.6 1.0
C E:ASP194 3.5 22.9 1.0
CG2 E:VAL190 3.5 23.2 1.0
C19 E:JJS1244 3.6 24.8 1.0
O E:CYS191 3.6 24.1 1.0
CB E:ASP194 3.6 22.9 1.0
CA E:SER195 3.7 23.1 1.0
CB E:VAL190 3.8 23.8 1.0
O E:ASP194 3.9 23.4 1.0
CA E:ASP194 4.1 23.6 1.0
OG E:SER195 4.1 24.2 1.0
C22 E:JJS1244 4.2 24.3 1.0
C E:ALA213 4.4 23.1 1.0
N E:CYS191 4.4 23.6 1.0
C E:CYS191 4.4 24.0 1.0
N E:ASP194 4.5 22.4 1.0
CA E:ALA213 4.5 22.0 1.0
CB E:SER195 4.6 23.4 1.0
O E:ALA213 4.6 22.0 1.0
N E:SER214 4.7 22.6 1.0
C18 E:JJS1244 4.7 25.6 1.0
C E:VAL190 4.8 24.0 1.0
CG1 E:VAL190 4.8 23.7 1.0
CG E:ASP194 4.9 24.9 1.0
CA E:CYS191 4.9 23.9 1.0
CA E:VAL190 4.9 23.1 1.0
C E:SER195 5.0 23.4 1.0
C23 E:JJS1244 5.0 22.6 1.0
CG1 E:VAL216 5.0 25.0 1.0

Fluorine binding site 2 out of 3 in 5a0a

Go back to Fluorine Binding Sites List in 5a0a
Fluorine binding site 2 out of 3 in the Crystal Structure of Human Neutrophil Elastase in Complex with A Dihydropyrimidone Inhibitor


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 2 of Crystal Structure of Human Neutrophil Elastase in Complex with A Dihydropyrimidone Inhibitor within 5.0Å range:
probe atom residue distance (Å) B Occ
E:F1244

b:26.4
occ:1.00
F27 E:JJS1244 0.0 26.4 1.0
C24 E:JJS1244 1.3 25.8 1.0
F26 E:JJS1244 2.1 22.9 1.0
F25 E:JJS1244 2.2 25.9 1.0
C20 E:JJS1244 2.3 23.9 1.0
C19 E:JJS1244 3.2 24.8 1.0
C21 E:JJS1244 3.2 24.3 1.0
N E:PHE215 3.3 23.4 1.0
CG2 E:VAL190 3.4 23.2 1.0
N E:SER214 3.5 22.6 1.0
C E:SER214 3.5 23.4 1.0
CA E:PHE215 3.6 24.3 1.0
C E:PHE215 3.7 23.9 1.0
CB E:ALA213 3.8 21.6 1.0
C E:ALA213 3.9 23.1 1.0
O E:SER214 3.9 22.2 1.0
CG1 E:VAL216 3.9 25.0 1.0
O E:PHE215 4.0 23.8 1.0
CA E:SER214 4.1 22.8 1.0
N E:VAL216 4.1 24.1 1.0
O E:ALA227 4.2 23.1 1.0
CA E:ALA213 4.3 22.0 1.0
CB E:VAL190 4.4 23.8 1.0
C18 E:JJS1244 4.4 25.6 1.0
C22 E:JJS1244 4.4 24.3 1.0
O E:ALA213 4.5 22.0 1.0
C23 E:JJS1244 4.9 22.6 1.0

Fluorine binding site 3 out of 3 in 5a0a

Go back to Fluorine Binding Sites List in 5a0a
Fluorine binding site 3 out of 3 in the Crystal Structure of Human Neutrophil Elastase in Complex with A Dihydropyrimidone Inhibitor


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 3 of Crystal Structure of Human Neutrophil Elastase in Complex with A Dihydropyrimidone Inhibitor within 5.0Å range:
probe atom residue distance (Å) B Occ
E:F1244

b:22.9
occ:1.00
F26 E:JJS1244 0.0 22.9 1.0
C24 E:JJS1244 1.3 25.8 1.0
F27 E:JJS1244 2.1 26.4 1.0
F25 E:JJS1244 2.1 25.9 1.0
C20 E:JJS1244 2.3 23.9 1.0
C19 E:JJS1244 2.8 24.8 1.0
O E:ALA213 3.1 22.0 1.0
C E:ALA213 3.1 23.1 1.0
N E:SER214 3.2 22.6 1.0
O E:SER214 3.2 22.2 1.0
CA E:SER195 3.3 23.1 1.0
C E:SER214 3.3 23.4 1.0
OG E:SER195 3.3 24.2 1.0
CA E:SER214 3.6 22.8 1.0
CB E:ALA213 3.6 21.6 1.0
C21 E:JJS1244 3.6 24.3 1.0
N E:SER195 3.7 22.7 1.0
CB E:SER195 3.8 23.4 1.0
N E:PHE215 3.9 23.4 1.0
CE1 E:HIS57 3.9 24.6 1.0
CA E:ALA213 3.9 22.0 1.0
C18 E:JJS1244 4.1 25.6 1.0
NE2 E:HIS57 4.2 25.0 1.0
CA E:PHE215 4.3 24.3 1.0
C E:ASP194 4.4 22.9 1.0
C E:SER195 4.5 23.4 1.0
N E:GLY196 4.5 24.3 1.0
O E:ASP194 4.6 23.4 1.0
C22 E:JJS1244 4.8 24.3 1.0
C23 E:JJS1244 5.0 22.6 1.0

Reference:

F.Von Nussbaum, V.M.Li, S.Allerheiligen, S.Anlauf, L.Barfacker, M.Bechem, M.Delbeck, M.F.Fitzgerald, M.Gerisch, H.Gielen-Haertwig, H.Haning, D.Karthaus, D.Lang, K.Lustig, D.Meibom, J.Mittendorf, U.Rosentreter, M.Schafer, S.Schafer, J.Schamberger, L.A.Telan, A.Tersteegen. Freezing the Bioactive Conformation to Boost Potency: the Identification of Bay 85-8501, A Selective and Potent Inhibitor of Human Neutrophil Elastase For Pulmonary Diseases. Chemmedchem V. 10 1163 2015.
ISSN: ESSN 1860-7187
PubMed: 26083237
DOI: 10.1002/CMDC.201500131
Page generated: Thu Aug 1 07:34:18 2024

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