Atomistry » Fluorine » PDB 3kqn-3l8s » 3kwb
Atomistry »
  Fluorine »
    PDB 3kqn-3l8s »
      3kwb »

Fluorine in PDB 3kwb: Structure of Catk Covalently Bound to A Dioxo-Triazine Inhibitor

Enzymatic activity of Structure of Catk Covalently Bound to A Dioxo-Triazine Inhibitor

All present enzymatic activity of Structure of Catk Covalently Bound to A Dioxo-Triazine Inhibitor:
3.4.22.38;

Protein crystallography data

The structure of Structure of Catk Covalently Bound to A Dioxo-Triazine Inhibitor, PDB code: 3kwb was solved by J.C.M.Uitdehaag, M.Van Zeeland, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 27.47 / 2.02
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 31.452, 69.338, 90.850, 90.00, 98.83, 90.00
R / Rfree (%) 19.4 / 26.3

Fluorine Binding Sites:

The binding sites of Fluorine atom in the Structure of Catk Covalently Bound to A Dioxo-Triazine Inhibitor (pdb code 3kwb). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total 6 binding sites of Fluorine where determined in the Structure of Catk Covalently Bound to A Dioxo-Triazine Inhibitor, PDB code: 3kwb:
Jump to Fluorine binding site number: 1; 2; 3; 4; 5; 6;

Fluorine binding site 1 out of 6 in 3kwb

Go back to Fluorine Binding Sites List in 3kwb
Fluorine binding site 1 out of 6 in the Structure of Catk Covalently Bound to A Dioxo-Triazine Inhibitor


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 1 of Structure of Catk Covalently Bound to A Dioxo-Triazine Inhibitor within 5.0Å range:
probe atom residue distance (Å) B Occ
X:F1216

b:33.4
occ:1.00
F1 X:ORH1216 0.0 33.4 1.0
C13 X:ORH1216 1.3 31.3 1.0
F2 X:ORH1216 2.1 32.9 1.0
F3 X:ORH1216 2.1 32.4 1.0
C8 X:ORH1216 2.3 29.1 1.0
C10 X:ORH1216 2.8 30.1 1.0
CD1 X:TYR1067 3.3 19.0 1.0
C7 X:ORH1216 3.4 27.1 1.0
O X:GLY1066 3.5 15.1 1.0
CE1 X:TYR1067 3.6 19.5 1.0
CD2 X:LEU1209 3.6 19.7 1.0
C12 X:ORH1216 4.2 30.6 1.0
SD X:MET1068 4.2 11.9 1.0
CG X:TYR1067 4.2 15.5 1.0
CA X:TYR1067 4.3 14.1 1.0
CB X:ALA1134 4.4 11.2 1.0
C X:GLY1066 4.5 16.7 1.0
C9 X:ORH1216 4.6 26.7 1.0
CE X:MET1068 4.6 13.8 1.0
O X:HOH50 4.6 31.1 1.0
CB X:TYR1067 4.7 15.5 1.0
CZ X:TYR1067 4.7 19.5 1.0
N X:TYR1067 4.9 14.5 1.0
O X:HOH22 4.9 14.4 1.0
C11 X:ORH1216 4.9 28.1 1.0
CB X:ALA1163 4.9 13.7 1.0
CG X:LEU1209 4.9 16.8 1.0

Fluorine binding site 2 out of 6 in 3kwb

Go back to Fluorine Binding Sites List in 3kwb
Fluorine binding site 2 out of 6 in the Structure of Catk Covalently Bound to A Dioxo-Triazine Inhibitor


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 2 of Structure of Catk Covalently Bound to A Dioxo-Triazine Inhibitor within 5.0Å range:
probe atom residue distance (Å) B Occ
X:F1216

b:32.9
occ:1.00
F2 X:ORH1216 0.0 32.9 1.0
C13 X:ORH1216 1.3 31.3 1.0
F1 X:ORH1216 2.1 33.4 1.0
F3 X:ORH1216 2.2 32.4 1.0
C8 X:ORH1216 2.2 29.1 1.0
C10 X:ORH1216 2.8 30.1 1.0
CB X:ALA1134 3.2 11.2 1.0
C7 X:ORH1216 3.4 27.1 1.0
CD2 X:LEU1209 3.4 19.7 1.0
CB X:LEU1160 3.6 20.7 1.0
O X:LEU1160 3.8 20.8 1.0
C12 X:ORH1216 4.1 30.6 1.0
C X:LEU1160 4.2 20.0 1.0
O X:HOH60 4.3 34.9 1.0
CE1 X:TYR1067 4.3 19.5 1.0
O X:HOH117 4.3 31.3 1.0
CD1 X:LEU1160 4.5 20.9 1.0
CA X:LEU1160 4.5 20.2 1.0
CD1 X:TYR1067 4.5 19.0 1.0
C9 X:ORH1216 4.6 26.7 1.0
CA X:ALA1134 4.6 12.0 1.0
CG X:LEU1160 4.7 22.9 1.0
CG X:LEU1209 4.7 16.8 1.0
O X:HIS1162 4.8 13.1 1.0
C11 X:ORH1216 4.9 28.1 1.0
CB X:LEU1209 4.9 16.2 1.0

Fluorine binding site 3 out of 6 in 3kwb

Go back to Fluorine Binding Sites List in 3kwb
Fluorine binding site 3 out of 6 in the Structure of Catk Covalently Bound to A Dioxo-Triazine Inhibitor


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 3 of Structure of Catk Covalently Bound to A Dioxo-Triazine Inhibitor within 5.0Å range:
probe atom residue distance (Å) B Occ
X:F1216

b:32.4
occ:1.00
F3 X:ORH1216 0.0 32.4 1.0
C13 X:ORH1216 1.3 31.3 1.0
F1 X:ORH1216 2.1 33.4 1.0
F2 X:ORH1216 2.2 32.9 1.0
C8 X:ORH1216 2.3 29.1 1.0
C7 X:ORH1216 2.7 27.1 1.0
CB X:ALA1134 3.5 11.2 1.0
CB X:ALA1163 3.5 13.7 1.0
O X:HIS1162 3.6 13.1 1.0
C10 X:ORH1216 3.6 30.1 1.0
C X:HIS1162 3.6 14.4 1.0
N X:ALA1163 3.8 12.9 1.0
CA X:ALA1163 3.8 12.6 1.0
C9 X:ORH1216 4.2 26.7 1.0
N X:HIS1162 4.3 15.8 1.0
CA X:ALA1134 4.3 12.0 1.0
SD X:MET1068 4.4 11.9 1.0
CA X:HIS1162 4.4 14.7 1.0
CE X:MET1068 4.5 13.8 1.0
O X:HOH50 4.6 31.1 1.0
O X:GLY1066 4.7 15.1 1.0
N4 X:ORH1216 4.8 20.9 1.0
CD2 X:LEU1209 4.8 19.7 1.0
C12 X:ORH1216 4.8 30.6 1.0
O X:LEU1160 4.8 20.8 1.0

Fluorine binding site 4 out of 6 in 3kwb

Go back to Fluorine Binding Sites List in 3kwb
Fluorine binding site 4 out of 6 in the Structure of Catk Covalently Bound to A Dioxo-Triazine Inhibitor


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 4 of Structure of Catk Covalently Bound to A Dioxo-Triazine Inhibitor within 5.0Å range:
probe atom residue distance (Å) B Occ
Y:F2216

b:28.9
occ:1.00
F1 Y:ORH2216 0.0 28.9 1.0
C13 Y:ORH2216 1.3 28.7 1.0
F2 Y:ORH2216 2.1 31.6 1.0
F3 Y:ORH2216 2.1 30.7 1.0
C8 Y:ORH2216 2.2 28.2 1.0
C10 Y:ORH2216 2.9 28.6 1.0
C7 Y:ORH2216 3.3 26.7 1.0
CD1 Y:TYR2067 3.6 20.3 1.0
O Y:GLY2066 3.7 15.7 1.0
CD2 Y:LEU2209 3.8 16.6 1.0
SD Y:MET2068 4.0 13.6 1.0
CE1 Y:TYR2067 4.0 20.6 1.0
CB Y:ALA2134 4.2 9.3 1.0
C12 Y:ORH2216 4.2 30.0 1.0
CE Y:MET2068 4.4 12.9 1.0
CA Y:TYR2067 4.5 14.8 1.0
C9 Y:ORH2216 4.5 27.0 1.0
CG Y:TYR2067 4.6 19.2 1.0
CB Y:ALA2163 4.7 10.0 1.0
C Y:GLY2066 4.7 16.6 1.0
C11 Y:ORH2216 4.9 29.1 1.0
CB Y:TYR2067 4.9 17.3 1.0

Fluorine binding site 5 out of 6 in 3kwb

Go back to Fluorine Binding Sites List in 3kwb
Fluorine binding site 5 out of 6 in the Structure of Catk Covalently Bound to A Dioxo-Triazine Inhibitor


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 5 of Structure of Catk Covalently Bound to A Dioxo-Triazine Inhibitor within 5.0Å range:
probe atom residue distance (Å) B Occ
Y:F2216

b:31.6
occ:1.00
F2 Y:ORH2216 0.0 31.6 1.0
C13 Y:ORH2216 1.3 28.7 1.0
F1 Y:ORH2216 2.1 28.9 1.0
F3 Y:ORH2216 2.2 30.7 1.0
C8 Y:ORH2216 2.2 28.2 1.0
C10 Y:ORH2216 2.8 28.6 1.0
C7 Y:ORH2216 3.4 26.7 1.0
CB Y:ALA2134 3.4 9.3 1.0
CD2 Y:LEU2209 3.6 16.6 1.0
CB Y:LEU2160 3.6 18.4 1.0
O Y:LEU2160 3.7 20.9 1.0
O Y:HOH77 4.0 35.8 1.0
C12 Y:ORH2216 4.1 30.0 1.0
C Y:LEU2160 4.1 19.0 1.0
CE1 Y:TYR2067 4.3 20.6 1.0
CD1 Y:TYR2067 4.5 20.3 1.0
CA Y:LEU2160 4.5 17.8 1.0
C9 Y:ORH2216 4.5 27.0 1.0
CD1 Y:LEU2160 4.6 20.1 1.0
CA Y:ALA2134 4.7 10.9 1.0
O Y:HOH174 4.7 20.0 1.0
CG Y:LEU2160 4.7 17.9 1.0
O Y:HIS2162 4.8 13.5 1.0
C11 Y:ORH2216 4.8 29.1 1.0
N Y:ASN2161 4.9 17.1 1.0
CG Y:LEU2209 5.0 15.9 1.0

Fluorine binding site 6 out of 6 in 3kwb

Go back to Fluorine Binding Sites List in 3kwb
Fluorine binding site 6 out of 6 in the Structure of Catk Covalently Bound to A Dioxo-Triazine Inhibitor


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 6 of Structure of Catk Covalently Bound to A Dioxo-Triazine Inhibitor within 5.0Å range:
probe atom residue distance (Å) B Occ
Y:F2216

b:30.7
occ:1.00
F3 Y:ORH2216 0.0 30.7 1.0
C13 Y:ORH2216 1.3 28.7 1.0
F1 Y:ORH2216 2.1 28.9 1.0
F2 Y:ORH2216 2.2 31.6 1.0
C8 Y:ORH2216 2.3 28.2 1.0
C7 Y:ORH2216 2.7 26.7 1.0
O Y:HIS2162 3.1 13.5 1.0
CB Y:ALA2134 3.3 9.3 1.0
C Y:HIS2162 3.3 13.4 1.0
C10 Y:ORH2216 3.6 28.6 1.0
N Y:ALA2163 3.6 12.3 1.0
CB Y:ALA2163 3.8 10.0 1.0
CA Y:ALA2163 3.8 10.5 1.0
N Y:HIS2162 3.9 14.0 1.0
CA Y:ALA2134 4.0 10.9 1.0
CA Y:HIS2162 4.1 13.6 1.0
C9 Y:ORH2216 4.2 27.0 1.0
O Y:LEU2160 4.6 20.9 1.0
C Y:ASN2161 4.6 14.1 1.0
SD Y:MET2068 4.7 13.6 1.0
C Y:LEU2160 4.7 19.0 1.0
CE Y:MET2068 4.7 12.9 1.0
CB Y:LEU2160 4.8 18.4 1.0
C12 Y:ORH2216 4.8 30.0 1.0
N Y:ASN2161 4.9 17.1 1.0
N4 Y:ORH2216 4.9 23.4 1.0
N Y:ILE2135 5.0 12.7 1.0
CD2 Y:LEU2209 5.0 16.6 1.0

Reference:

Z.Rankovic, J.Cai, X.Fradera, M.Dempster, A.Mistry, A.Mitchell, C.Long, E.Hamilton, A.King, S.Boucharens, C.Jamieson, J.Gillespie, I.Cumming, J.Uitdehaag, M.Van Zeeland. Dioxo-Triazines As A Novel Series of Cathepsin K Inhibitors Bioorg.Med.Chem.Lett. V. 20 1488 2010.
ISSN: ISSN 0960-894X
PubMed: 20153187
DOI: 10.1016/J.BMCL.2010.01.116
Page generated: Mon Jul 14 17:38:21 2025

Last articles

Fe in 2YXO
Fe in 2YRS
Fe in 2YXC
Fe in 2YNM
Fe in 2YVJ
Fe in 2YP1
Fe in 2YU2
Fe in 2YU1
Fe in 2YQB
Fe in 2YOO
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy