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Fluorine in PDB 3qrs: Hiv-1 Protease (Mutant Q7K L33I L63I) in Complex with A Three-Armed Pyrrolidine-Based Inhibitor

Enzymatic activity of Hiv-1 Protease (Mutant Q7K L33I L63I) in Complex with A Three-Armed Pyrrolidine-Based Inhibitor

All present enzymatic activity of Hiv-1 Protease (Mutant Q7K L33I L63I) in Complex with A Three-Armed Pyrrolidine-Based Inhibitor:
3.4.23.16;

Protein crystallography data

The structure of Hiv-1 Protease (Mutant Q7K L33I L63I) in Complex with A Three-Armed Pyrrolidine-Based Inhibitor, PDB code: 3qrs was solved by I.Lindemann, A.Heine, G.Klebe, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 40.92 / 1.59
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 57.900, 86.170, 46.500, 90.00, 90.00, 90.00
R / Rfree (%) 21.2 / 24.3

Other elements in 3qrs:

The structure of Hiv-1 Protease (Mutant Q7K L33I L63I) in Complex with A Three-Armed Pyrrolidine-Based Inhibitor also contains other interesting chemical elements:

Chlorine (Cl) 3 atoms

Fluorine Binding Sites:

The binding sites of Fluorine atom in the Hiv-1 Protease (Mutant Q7K L33I L63I) in Complex with A Three-Armed Pyrrolidine-Based Inhibitor (pdb code 3qrs). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total 3 binding sites of Fluorine where determined in the Hiv-1 Protease (Mutant Q7K L33I L63I) in Complex with A Three-Armed Pyrrolidine-Based Inhibitor, PDB code: 3qrs:
Jump to Fluorine binding site number: 1; 2; 3;

Fluorine binding site 1 out of 3 in 3qrs

Go back to Fluorine Binding Sites List in 3qrs
Fluorine binding site 1 out of 3 in the Hiv-1 Protease (Mutant Q7K L33I L63I) in Complex with A Three-Armed Pyrrolidine-Based Inhibitor


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 1 of Hiv-1 Protease (Mutant Q7K L33I L63I) in Complex with A Three-Armed Pyrrolidine-Based Inhibitor within 5.0Å range:
probe atom residue distance (Å) B Occ
B:F100

b:21.7
occ:1.00
F5 B:NK8100 0.0 21.7 1.0
C4 B:NK8100 1.3 18.1 1.0
F7 B:NK8100 2.1 22.1 1.0
F6 B:NK8100 2.2 14.4 1.0
C3 B:NK8100 2.3 9.3 1.0
C2 B:NK8100 2.7 8.3 1.0
NH1 B:ARG8 3.3 18.4 1.0
NH2 B:ARG8 3.3 14.8 1.0
CZ B:ARG8 3.4 12.8 1.0
C8 B:NK8100 3.6 8.7 1.0
O B:HOH183 3.7 31.2 1.0
O A:HOH157 4.0 16.5 1.0
CG1 B:VAL82 4.0 8.8 0.7
C1 B:NK8100 4.1 8.5 1.0
NE B:ARG8 4.2 10.1 1.0
CG1 B:VAL82 4.2 8.9 0.3
O A:HOH102 4.5 11.5 1.0
CG2 B:VAL82 4.5 9.6 0.7
CB B:PRO81 4.6 10.8 1.0
C9 B:NK8100 4.7 9.0 1.0
CB B:VAL82 4.9 8.5 0.3
CD B:ARG8 4.9 10.5 1.0
C10 B:NK8100 4.9 8.3 1.0
CG B:PRO81 4.9 14.7 1.0
CB B:VAL82 5.0 8.5 0.7

Fluorine binding site 2 out of 3 in 3qrs

Go back to Fluorine Binding Sites List in 3qrs
Fluorine binding site 2 out of 3 in the Hiv-1 Protease (Mutant Q7K L33I L63I) in Complex with A Three-Armed Pyrrolidine-Based Inhibitor


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 2 of Hiv-1 Protease (Mutant Q7K L33I L63I) in Complex with A Three-Armed Pyrrolidine-Based Inhibitor within 5.0Å range:
probe atom residue distance (Å) B Occ
B:F100

b:14.4
occ:1.00
F6 B:NK8100 0.0 14.4 1.0
C4 B:NK8100 1.3 18.1 1.0
F7 B:NK8100 2.1 22.1 1.0
F5 B:NK8100 2.2 21.7 1.0
C3 B:NK8100 2.3 9.3 1.0
C8 B:NK8100 3.0 8.7 1.0
O A:HOH102 3.1 11.5 1.0
NH2 B:ARG8 3.3 14.8 1.0
C2 B:NK8100 3.3 8.3 1.0
O B:HOH183 3.8 31.2 1.0
O B:HOH125 3.8 14.2 1.0
OD2 A:ASP29 3.9 14.1 1.0
CZ B:ARG8 4.0 12.8 1.0
O A:HOH157 4.1 16.5 1.0
N34 B:NK8100 4.1 10.6 1.0
C9 B:NK8100 4.3 9.0 1.0
C36 B:NK8100 4.3 9.2 1.0
C1 B:NK8100 4.5 8.5 1.0
NH1 B:ARG8 4.5 18.4 1.0
CG A:ASP29 4.6 10.1 1.0
NE B:ARG8 4.7 10.1 1.0
O A:GLY48 4.7 12.3 1.0
C33 B:NK8100 4.7 11.0 1.0
C32 B:NK8100 4.9 8.1 1.0
O A:HOH133 4.9 20.6 1.0
OD1 A:ASP29 4.9 7.5 1.0
C10 B:NK8100 4.9 8.3 1.0

Fluorine binding site 3 out of 3 in 3qrs

Go back to Fluorine Binding Sites List in 3qrs
Fluorine binding site 3 out of 3 in the Hiv-1 Protease (Mutant Q7K L33I L63I) in Complex with A Three-Armed Pyrrolidine-Based Inhibitor


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 3 of Hiv-1 Protease (Mutant Q7K L33I L63I) in Complex with A Three-Armed Pyrrolidine-Based Inhibitor within 5.0Å range:
probe atom residue distance (Å) B Occ
B:F100

b:22.1
occ:1.00
F7 B:NK8100 0.0 22.1 1.0
C4 B:NK8100 1.3 18.1 1.0
F6 B:NK8100 2.1 14.4 1.0
F5 B:NK8100 2.1 21.7 1.0
C3 B:NK8100 2.3 9.3 1.0
C8 B:NK8100 2.8 8.7 1.0
C2 B:NK8100 3.5 8.3 1.0
CB B:PRO81 3.6 10.8 1.0
O B:HOH183 3.7 31.2 1.0
C9 B:NK8100 4.1 9.0 1.0
CG B:PRO81 4.1 14.7 1.0
O B:HOH125 4.2 14.2 1.0
O A:GLY48 4.2 12.3 1.0
NH2 B:ARG8 4.5 14.8 1.0
C1 B:NK8100 4.6 8.5 1.0
C10 B:NK8100 4.9 8.3 1.0
CA B:PRO81 5.0 12.4 1.0

Reference:

I.Lindemann, N.Klee, A.Heine, W.E.Diederich, G.Klebe. Design of A Series of Novel Three-Armed Pyrrolidine-Based Inhibitors For Hiv-1 Protease To Be Published.
Page generated: Mon Jul 14 19:00:06 2025

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