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Fluorine in PDB 8v72: Crystal Structure of the Core Catalytic Domain of Human Inositol Phosphate Multikinase in Complex with Compound 8

Enzymatic activity of Crystal Structure of the Core Catalytic Domain of Human Inositol Phosphate Multikinase in Complex with Compound 8

All present enzymatic activity of Crystal Structure of the Core Catalytic Domain of Human Inositol Phosphate Multikinase in Complex with Compound 8:
2.7.1.140; 2.7.1.151; 2.7.1.153;

Protein crystallography data

The structure of Crystal Structure of the Core Catalytic Domain of Human Inositol Phosphate Multikinase in Complex with Compound 8, PDB code: 8v72 was solved by H.Wang, S.B.Shears, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 42.55 / 2.00
Space group P 42 21 2
Cell size a, b, c (Å), α, β, γ (°) 77.876, 77.876, 85.037, 90, 90, 90
R / Rfree (%) 17.2 / 24.3

Fluorine Binding Sites:

The binding sites of Fluorine atom in the Crystal Structure of the Core Catalytic Domain of Human Inositol Phosphate Multikinase in Complex with Compound 8 (pdb code 8v72). 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 the Core Catalytic Domain of Human Inositol Phosphate Multikinase in Complex with Compound 8, PDB code: 8v72:
Jump to Fluorine binding site number: 1; 2; 3;

Fluorine binding site 1 out of 3 in 8v72

Go back to Fluorine Binding Sites List in 8v72
Fluorine binding site 1 out of 3 in the Crystal Structure of the Core Catalytic Domain of Human Inositol Phosphate Multikinase in Complex with Compound 8


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 the Core Catalytic Domain of Human Inositol Phosphate Multikinase in Complex with Compound 8 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F501

b:51.0
occ:1.00
F A:YIB501 0.0 51.0 1.0
C12 A:YIB501 1.3 43.5 1.0
F1 A:YIB501 2.2 55.7 1.0
F2 A:YIB501 2.2 48.9 1.0
O A:YIB501 2.3 35.5 1.0
C9 A:YIB501 3.0 29.7 1.0
C10 A:YIB501 3.2 26.7 1.0
NE2 A:GLN67 3.8 44.2 1.0
NH1 A:ARG182 3.9 65.3 1.0
CD1 A:ILE142 4.0 25.9 1.0
O A:HOH621 4.3 45.9 1.0
CD A:GLN67 4.3 41.8 1.0
C8 A:YIB501 4.4 26.9 1.0
OE1 A:GLN67 4.4 44.2 1.0
CZ A:ARG182 4.4 62.2 1.0
C11 A:YIB501 4.5 24.8 1.0
CD A:ARG182 4.5 47.8 1.0
NE A:ARG182 4.7 55.0 1.0

Fluorine binding site 2 out of 3 in 8v72

Go back to Fluorine Binding Sites List in 8v72
Fluorine binding site 2 out of 3 in the Crystal Structure of the Core Catalytic Domain of Human Inositol Phosphate Multikinase in Complex with Compound 8


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 the Core Catalytic Domain of Human Inositol Phosphate Multikinase in Complex with Compound 8 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F501

b:55.7
occ:1.00
F1 A:YIB501 0.0 55.7 1.0
C12 A:YIB501 1.3 43.5 1.0
F2 A:YIB501 2.2 48.9 1.0
F A:YIB501 2.2 51.0 1.0
O A:YIB501 2.2 35.5 1.0
C9 A:YIB501 2.7 29.7 1.0
C10 A:YIB501 3.2 26.7 1.0
C8 A:YIB501 3.6 26.9 1.0
NE2 A:GLN67 4.3 44.2 1.0
C11 A:YIB501 4.4 24.8 1.0
CD A:GLN67 4.7 41.8 1.0
C7 A:YIB501 4.7 23.5 1.0
CG2 A:ILE65 5.0 47.8 1.0

Fluorine binding site 3 out of 3 in 8v72

Go back to Fluorine Binding Sites List in 8v72
Fluorine binding site 3 out of 3 in the Crystal Structure of the Core Catalytic Domain of Human Inositol Phosphate Multikinase in Complex with Compound 8


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 the Core Catalytic Domain of Human Inositol Phosphate Multikinase in Complex with Compound 8 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F501

b:48.9
occ:1.00
F2 A:YIB501 0.0 48.9 1.0
C12 A:YIB501 1.3 43.5 1.0
F1 A:YIB501 2.2 55.7 1.0
F A:YIB501 2.2 51.0 1.0
O A:YIB501 2.2 35.5 1.0
C9 A:YIB501 3.5 29.7 1.0
CD A:ARG182 4.0 47.8 1.0
C10 A:YIB501 4.4 26.7 1.0
C8 A:YIB501 4.4 26.9 1.0
O A:HOH721 4.4 49.5 1.0
NE A:ARG182 4.6 55.0 1.0
NH1 A:ARG182 4.8 65.3 1.0
CD1 A:ILE142 5.0 25.9 1.0
CZ A:ARG182 5.0 62.2 1.0

Reference:

H.Wang, S.B.Shears. Structure-Based Development of Ipmk Kinase Inhibitors. To Be Published.
Page generated: Wed Jul 16 09:39:31 2025

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