Atomistry » Fluorine » PDB 3d3e-3du8 » 3d7d
Atomistry »
  Fluorine »
    PDB 3d3e-3du8 »
      3d7d »

Fluorine in PDB 3d7d: A High Resolution Crystal Structure of Human Glutamate Carboxypeptidase II (Gcpii) in A Complex with Dcfbd, A Urea-Based Inhibitor

Enzymatic activity of A High Resolution Crystal Structure of Human Glutamate Carboxypeptidase II (Gcpii) in A Complex with Dcfbd, A Urea-Based Inhibitor

All present enzymatic activity of A High Resolution Crystal Structure of Human Glutamate Carboxypeptidase II (Gcpii) in A Complex with Dcfbd, A Urea-Based Inhibitor:
3.4.17.21;

Protein crystallography data

The structure of A High Resolution Crystal Structure of Human Glutamate Carboxypeptidase II (Gcpii) in A Complex with Dcfbd, A Urea-Based Inhibitor, PDB code: 3d7d was solved by J.Lubkowski, C.Barinka, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 15.00 / 1.69
Space group I 2 2 2
Cell size a, b, c (Å), α, β, γ (°) 101.930, 130.497, 159.187, 90.00, 90.00, 90.00
R / Rfree (%) 17.9 / 19.9

Other elements in 3d7d:

The structure of A High Resolution Crystal Structure of Human Glutamate Carboxypeptidase II (Gcpii) in A Complex with Dcfbd, A Urea-Based Inhibitor also contains other interesting chemical elements:

Chlorine (Cl) 1 atom
Calcium (Ca) 1 atom
Zinc (Zn) 2 atoms

Fluorine Binding Sites:

The binding sites of Fluorine atom in the A High Resolution Crystal Structure of Human Glutamate Carboxypeptidase II (Gcpii) in A Complex with Dcfbd, A Urea-Based Inhibitor (pdb code 3d7d). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total only one binding site of Fluorine was determined in the A High Resolution Crystal Structure of Human Glutamate Carboxypeptidase II (Gcpii) in A Complex with Dcfbd, A Urea-Based Inhibitor, PDB code: 3d7d:

Fluorine binding site 1 out of 1 in 3d7d

Go back to Fluorine Binding Sites List in 3d7d
Fluorine binding site 1 out of 1 in the A High Resolution Crystal Structure of Human Glutamate Carboxypeptidase II (Gcpii) in A Complex with Dcfbd, A Urea-Based Inhibitor


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 1 of A High Resolution Crystal Structure of Human Glutamate Carboxypeptidase II (Gcpii) in A Complex with Dcfbd, A Urea-Based Inhibitor within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F1

b:46.8
occ:1.00
 F21 A:FBD1 0.0 46.8 1.0
C20 A:FBD1 1.4 44.3 1.0
C22 A:FBD1 2.3 42.6 1.0
C19 A:FBD1 2.4 40.9 1.0
O A:HOH2384 2.5 43.7 1.0
NH2 A:ARG463 3.3 30.4 1.0
CZ A:ARG463 3.4 29.9 1.0
OD2 A:ASP465 3.5 33.1 1.0
NH2 A:ARG534 3.5 23.0 1.0
NE A:ARG463 3.6 30.4 1.0
O A:HOH2347 3.6 46.3 1.0
C23 A:FBD1 3.6 43.5 1.0
C18 A:FBD1 3.7 42.0 1.0
CZ A:ARG534 3.8 23.2 1.0
O A:HOH2385 3.9 47.8 1.0
NH1 A:ARG463 4.0 30.4 1.0
O A:HOH1858 4.0 21.8 1.0
C17 A:FBD1 4.2 43.9 1.0
NH1 A:ARG534 4.4 23.0 1.0
CD A:ARG463 4.4 24.3 1.0
NE A:ARG534 4.4 22.3 1.0
CG A:ASP465 4.5 27.0 1.0
CD A:ARG534 4.7 21.6 1.0
O A:HOH1939 4.7 26.3 1.0
O A:HOH2386 4.8 34.4 1.0
OD1 A:ASP465 4.9 32.0 1.0

Reference:

C.Barinka, Y.Byun, C.L.Dusich, S.R.Banerjee, Y.Chen, M.Castanares, A.P.Kozikowski, R.C.Mease, M.G.Pomper, J.Lubkowski. Interactions Between Human Glutamate Carboxypeptidase II and Urea-Based Inhibitors: Structural Characterization J.Med.Chem. V. 51 7737 2008.
ISSN: ISSN 0022-2623
PubMed: 19053759
DOI: 10.1021/JM800765E
Page generated: Mon Jul 14 15:48:26 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