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Fluorine in PDB 6o9o: Crystal Structure of SMYD3 with Potent and Selective Isoxazole Amide Inhibitor 1

Enzymatic activity of Crystal Structure of SMYD3 with Potent and Selective Isoxazole Amide Inhibitor 1

All present enzymatic activity of Crystal Structure of SMYD3 with Potent and Selective Isoxazole Amide Inhibitor 1:
2.1.1.43;

Protein crystallography data

The structure of Crystal Structure of SMYD3 with Potent and Selective Isoxazole Amide Inhibitor 1, PDB code: 6o9o was solved by P.A.Elkins, L.Wang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 56.61 / 1.59
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 61.433, 66.636, 107.340, 90.00, 90.00, 90.00
R / Rfree (%) 17.2 / 20

Other elements in 6o9o:

The structure of Crystal Structure of SMYD3 with Potent and Selective Isoxazole Amide Inhibitor 1 also contains other interesting chemical elements:

Magnesium (Mg) 2 atoms
Zinc (Zn) 3 atoms

Fluorine Binding Sites:

The binding sites of Fluorine atom in the Crystal Structure of SMYD3 with Potent and Selective Isoxazole Amide Inhibitor 1 (pdb code 6o9o). 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 SMYD3 with Potent and Selective Isoxazole Amide Inhibitor 1, PDB code: 6o9o:
Jump to Fluorine binding site number: 1; 2; 3;

Fluorine binding site 1 out of 3 in 6o9o

Go back to Fluorine Binding Sites List in 6o9o
Fluorine binding site 1 out of 3 in the Crystal Structure of SMYD3 with Potent and Selective Isoxazole Amide Inhibitor 1


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 SMYD3 with Potent and Selective Isoxazole Amide Inhibitor 1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F510

b:33.5
occ:1.00
F01 A:LUP510 0.0 33.5 1.0
C02 A:LUP510 1.3 32.9 1.0
F03 A:LUP510 2.1 31.3 1.0
F04 A:LUP510 2.1 38.5 1.0
C05 A:LUP510 2.3 30.2 1.0
C06 A:LUP510 2.8 30.8 1.0
CB A:GLU294 3.3 24.7 1.0
CG A:GLU294 3.4 30.3 1.0
CA A:GLU294 3.5 20.1 1.0
SG A:CYS333 3.7 17.9 1.0
CD A:GLU294 4.1 34.5 1.0
C07 A:LUP510 4.1 31.7 1.0
N A:GLU294 4.2 19.4 1.0
O A:HOH829 4.2 37.0 1.0
O A:HOH756 4.3 33.6 1.0
OE2 A:GLU294 4.4 36.0 1.0
O A:HOH808 4.5 26.6 1.0
CD A:LYS297 4.6 24.7 1.0
OE1 A:GLU294 4.7 33.0 1.0
CD2 A:LEU290 4.7 18.1 1.0
C A:GLU294 4.8 20.4 1.0
O A:LEU290 4.9 20.4 1.0
C A:ILE293 4.9 18.9 1.0

Fluorine binding site 2 out of 3 in 6o9o

Go back to Fluorine Binding Sites List in 6o9o
Fluorine binding site 2 out of 3 in the Crystal Structure of SMYD3 with Potent and Selective Isoxazole Amide Inhibitor 1


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 SMYD3 with Potent and Selective Isoxazole Amide Inhibitor 1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F510

b:31.3
occ:1.00
F03 A:LUP510 0.0 31.3 1.0
C02 A:LUP510 1.3 32.9 1.0
F01 A:LUP510 2.1 33.5 1.0
F04 A:LUP510 2.1 38.5 1.0
C05 A:LUP510 2.3 30.2 1.0
C06 A:LUP510 3.0 30.8 1.0
CD A:GLU294 3.2 34.5 1.0
CB A:GLU294 3.3 24.7 1.0
CG A:GLU294 3.4 30.3 1.0
OE1 A:GLU294 3.5 33.0 1.0
OE2 A:GLU294 3.6 36.0 1.0
O A:HOH830 3.6 33.8 1.0
O A:HOH732 3.7 39.6 1.0
O A:HOH852 4.0 39.6 1.0
CA A:GLU294 4.3 20.1 1.0
C07 A:LUP510 4.4 31.7 1.0
O A:LEU290 4.5 20.4 1.0
CD2 A:LEU290 4.7 18.1 1.0
CD A:LYS329 4.8 15.9 1.0
N A:GLU294 4.9 19.4 1.0

Fluorine binding site 3 out of 3 in 6o9o

Go back to Fluorine Binding Sites List in 6o9o
Fluorine binding site 3 out of 3 in the Crystal Structure of SMYD3 with Potent and Selective Isoxazole Amide Inhibitor 1


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 SMYD3 with Potent and Selective Isoxazole Amide Inhibitor 1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F510

b:38.5
occ:1.00
F04 A:LUP510 0.0 38.5 1.0
C02 A:LUP510 1.3 32.9 1.0
F03 A:LUP510 2.1 31.3 1.0
F01 A:LUP510 2.1 33.5 1.0
C05 A:LUP510 2.3 30.2 1.0
CD2 A:LEU290 3.3 18.1 1.0
CB A:LYS329 3.5 15.2 1.0
C06 A:LUP510 3.6 30.8 1.0
SG A:CYS333 3.9 17.9 1.0
CG A:LYS329 4.0 16.1 1.0
CD A:LYS329 4.0 15.9 1.0
CG A:LEU290 4.3 17.9 1.0
CD1 A:LEU290 4.4 18.8 1.0
O A:LYS329 4.5 16.4 1.0
CA A:LYS329 4.5 13.1 1.0
CB A:GLU294 4.5 24.7 1.0
CB A:LEU290 4.6 21.3 1.0
O A:HOH830 4.6 33.8 1.0
C A:LYS329 4.6 14.2 1.0
C07 A:LUP510 4.8 31.7 1.0
O A:HOH808 4.8 26.6 1.0
O A:LEU290 4.9 20.4 1.0
O A:HOH637 4.9 20.5 1.0

Reference:

D.-S.Su, P.A.Elkins. Discovery of Isoxazole Amides As Potent and Selective SMYD3 Inhibitors To Be Published.
Page generated: Tue Jul 15 13:58:35 2025

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