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Fluorine in PDB 3oy3: Crystal Structure of Abl T315I Mutant Kinase Domain Bound with A Dfg- Out Inhibitor AP24589

Enzymatic activity of Crystal Structure of Abl T315I Mutant Kinase Domain Bound with A Dfg- Out Inhibitor AP24589

All present enzymatic activity of Crystal Structure of Abl T315I Mutant Kinase Domain Bound with A Dfg- Out Inhibitor AP24589:
2.7.10.2;

Protein crystallography data

The structure of Crystal Structure of Abl T315I Mutant Kinase Domain Bound with A Dfg- Out Inhibitor AP24589, PDB code: 3oy3 was solved by T.Zhou, L.Commodore, W.S.Huang, Y.Wang, M.Thomas, J.Keats, Q.Xu, V.Rivera, W.C.Shakespeare, T.Clackson, D.C.Dalgarno, X.Zhu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.00 / 1.95
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 66.471, 59.988, 89.439, 90.00, 97.97, 90.00
R / Rfree (%) 22 / 26.6

Fluorine Binding Sites:

The binding sites of Fluorine atom in the Crystal Structure of Abl T315I Mutant Kinase Domain Bound with A Dfg- Out Inhibitor AP24589 (pdb code 3oy3). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total 6 binding sites of Fluorine where determined in the Crystal Structure of Abl T315I Mutant Kinase Domain Bound with A Dfg- Out Inhibitor AP24589, PDB code: 3oy3:
Jump to Fluorine binding site number: 1; 2; 3; 4; 5; 6;

Fluorine binding site 1 out of 6 in 3oy3

Go back to Fluorine Binding Sites List in 3oy3
Fluorine binding site 1 out of 6 in the Crystal Structure of Abl T315I Mutant Kinase Domain Bound with A Dfg- Out Inhibitor AP24589


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 Abl T315I Mutant Kinase Domain Bound with A Dfg- Out Inhibitor AP24589 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F1

b:19.2
occ:1.00
F1 A:XY31 0.0 19.2 1.0
C19 A:XY31 1.3 17.1 1.0
F2 A:XY31 2.1 17.1 1.0
F3 A:XY31 2.2 18.1 1.0
C17 A:XY31 2.3 14.6 1.0
C16 A:XY31 3.1 15.6 1.0
C20 A:XY31 3.2 13.8 1.0
CD2 A:HIS361 3.3 13.3 1.0
C18 A:XY31 3.4 12.8 1.0
NE2 A:HIS361 3.4 13.0 1.0
O A:ALA380 3.7 12.3 1.0
C A:ALA380 3.8 11.2 1.0
CG1 A:VAL379 3.8 15.6 1.0
CB A:ASP381 4.1 15.9 1.0
C21 A:XY31 4.2 14.6 1.0
CA A:ALA380 4.2 10.0 1.0
N3 A:XY31 4.2 13.8 1.0
N A:ASP381 4.3 11.3 1.0
CG A:HIS361 4.3 12.7 1.0
CD2 A:LEU298 4.3 11.3 1.0
CE1 A:HIS361 4.4 11.9 1.0
C15 A:XY31 4.4 14.4 1.0
N A:ALA380 4.5 11.9 1.0
CD1 A:LEU354 4.5 12.8 1.0
O A:VAL379 4.6 9.9 1.0
C13 A:XY31 4.6 14.9 1.0
C A:VAL379 4.6 10.2 1.0
CA A:ASP381 4.8 15.1 1.0
ND1 A:HIS361 4.8 12.0 1.0

Fluorine binding site 2 out of 6 in 3oy3

Go back to Fluorine Binding Sites List in 3oy3
Fluorine binding site 2 out of 6 in the Crystal Structure of Abl T315I Mutant Kinase Domain Bound with A Dfg- Out Inhibitor AP24589


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 Abl T315I Mutant Kinase Domain Bound with A Dfg- Out Inhibitor AP24589 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F1

b:17.1
occ:1.00
F2 A:XY31 0.0 17.1 1.0
C19 A:XY31 1.3 17.1 1.0
F1 A:XY31 2.1 19.2 1.0
F3 A:XY31 2.1 18.1 1.0
C17 A:XY31 2.4 14.6 1.0
C18 A:XY31 2.8 12.8 1.0
O A:VAL379 3.1 9.9 1.0
CA A:ALA380 3.4 10.0 1.0
C A:VAL379 3.6 10.2 1.0
CG2 A:VAL299 3.7 11.0 1.0
CD2 A:LEU298 3.7 11.3 1.0
C16 A:XY31 3.7 15.6 1.0
C A:ALA380 3.8 11.2 1.0
N A:ALA380 3.8 11.9 1.0
CG1 A:VAL379 4.1 15.6 1.0
O A:ALA380 4.2 12.3 1.0
C13 A:XY31 4.2 14.9 1.0
N A:ASP381 4.3 11.3 1.0
N A:VAL299 4.3 13.7 1.0
C20 A:XY31 4.4 13.8 1.0
O1 A:XY31 4.4 12.4 1.0
CB A:LEU298 4.6 9.5 1.0
CB A:ALA380 4.6 10.0 1.0
CB A:VAL379 4.7 14.1 1.0
CB A:VAL299 4.8 13.0 1.0
CA A:VAL379 4.8 12.0 1.0
CG A:LEU298 4.8 13.2 1.0
CA A:LEU298 4.9 12.3 1.0
C15 A:XY31 4.9 14.4 1.0
CG1 A:VAL299 4.9 11.5 1.0
NE2 A:HIS361 5.0 13.0 1.0

Fluorine binding site 3 out of 6 in 3oy3

Go back to Fluorine Binding Sites List in 3oy3
Fluorine binding site 3 out of 6 in the Crystal Structure of Abl T315I Mutant Kinase Domain Bound with A Dfg- Out Inhibitor AP24589


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 Abl T315I Mutant Kinase Domain Bound with A Dfg- Out Inhibitor AP24589 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F1

b:18.1
occ:1.00
F3 A:XY31 0.0 18.1 1.0
C19 A:XY31 1.3 17.1 1.0
F2 A:XY31 2.1 17.1 1.0
F1 A:XY31 2.2 19.2 1.0
C17 A:XY31 2.4 14.6 1.0
C20 A:XY31 3.0 13.8 1.0
C16 A:XY31 3.0 15.6 1.0
CD1 A:ILE293 3.3 16.6 1.0
C18 A:XY31 3.5 12.8 1.0
CD2 A:LEU298 3.8 11.3 1.0
CD2 A:LEU354 4.3 14.8 1.0
C15 A:XY31 4.3 14.4 1.0
N3 A:XY31 4.3 13.8 1.0
CG2 A:ILE293 4.4 11.8 1.0
CG1 A:ILE293 4.5 15.2 1.0
CD1 A:LEU354 4.5 12.8 1.0
C13 A:XY31 4.7 14.9 1.0
CG A:LEU298 4.8 13.2 1.0
CB A:LEU298 4.8 9.5 1.0
CB A:ILE293 4.9 16.5 1.0
CD1 A:LEU298 5.0 13.9 1.0
O A:VAL379 5.0 9.9 1.0
CG A:LEU354 5.0 14.4 1.0

Fluorine binding site 4 out of 6 in 3oy3

Go back to Fluorine Binding Sites List in 3oy3
Fluorine binding site 4 out of 6 in the Crystal Structure of Abl T315I Mutant Kinase Domain Bound with A Dfg- Out Inhibitor AP24589


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 4 of Crystal Structure of Abl T315I Mutant Kinase Domain Bound with A Dfg- Out Inhibitor AP24589 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:F1

b:26.0
occ:1.00
F1 B:XY31 0.0 26.0 1.0
C19 B:XY31 1.3 27.4 1.0
F2 B:XY31 2.1 27.6 1.0
F3 B:XY31 2.2 27.5 1.0
C17 B:XY31 2.3 25.9 1.0
C16 B:XY31 3.2 25.2 1.0
CD2 B:HIS361 3.2 24.7 1.0
C18 B:XY31 3.3 25.4 1.0
NE2 B:HIS361 3.3 24.0 1.0
C20 B:XY31 3.4 24.7 1.0
O B:ALA380 3.7 19.8 1.0
C B:ALA380 3.8 18.0 1.0
CG1 B:VAL379 3.9 20.4 1.0
CB B:ASP381 4.1 23.8 1.0
CA B:ALA380 4.2 17.8 1.0
N B:ASP381 4.2 20.2 1.0
CG B:HIS361 4.2 25.3 1.0
CD2 B:LEU298 4.2 22.8 1.0
C21 B:XY31 4.3 25.2 1.0
N3 B:XY31 4.4 25.8 1.0
CE1 B:HIS361 4.4 21.6 1.0
N B:ALA380 4.5 18.1 1.0
C15 B:XY31 4.5 25.8 1.0
O B:VAL379 4.5 18.8 1.0
C B:VAL379 4.6 19.0 1.0
CD1 B:LEU354 4.6 27.2 1.0
C13 B:XY31 4.6 25.3 1.0
CA B:ASP381 4.8 23.7 1.0
ND1 B:HIS361 4.9 23.4 1.0
CB B:VAL379 5.0 22.7 1.0

Fluorine binding site 5 out of 6 in 3oy3

Go back to Fluorine Binding Sites List in 3oy3
Fluorine binding site 5 out of 6 in the Crystal Structure of Abl T315I Mutant Kinase Domain Bound with A Dfg- Out Inhibitor AP24589


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 5 of Crystal Structure of Abl T315I Mutant Kinase Domain Bound with A Dfg- Out Inhibitor AP24589 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:F1

b:27.6
occ:1.00
F2 B:XY31 0.0 27.6 1.0
C19 B:XY31 1.3 27.4 1.0
F3 B:XY31 2.1 27.5 1.0
F1 B:XY31 2.1 26.0 1.0
C17 B:XY31 2.4 25.9 1.0
C18 B:XY31 2.8 25.4 1.0
O B:VAL379 3.0 18.8 1.0
CA B:ALA380 3.5 17.8 1.0
CD2 B:LEU298 3.5 22.8 1.0
C B:VAL379 3.6 19.0 1.0
CG2 B:VAL299 3.7 26.1 1.0
C16 B:XY31 3.8 25.2 1.0
C B:ALA380 3.8 18.0 1.0
N B:ALA380 3.9 18.1 1.0
C13 B:XY31 4.2 25.3 1.0
N B:ASP381 4.3 20.2 1.0
O B:ALA380 4.3 19.8 1.0
CG1 B:VAL379 4.3 20.4 1.0
N B:VAL299 4.3 25.9 1.0
O1 B:XY31 4.3 20.4 1.0
C20 B:XY31 4.5 24.7 1.0
CB B:LEU298 4.6 22.3 1.0
CG B:LEU298 4.7 23.2 1.0
CB B:ALA380 4.7 13.0 1.0
CB B:VAL379 4.7 22.7 1.0
CA B:VAL379 4.8 20.8 1.0
CB B:VAL299 4.8 26.4 1.0
CA B:LEU298 4.9 24.1 1.0
C15 B:XY31 4.9 25.8 1.0
CG1 B:VAL299 4.9 27.4 1.0

Fluorine binding site 6 out of 6 in 3oy3

Go back to Fluorine Binding Sites List in 3oy3
Fluorine binding site 6 out of 6 in the Crystal Structure of Abl T315I Mutant Kinase Domain Bound with A Dfg- Out Inhibitor AP24589


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 6 of Crystal Structure of Abl T315I Mutant Kinase Domain Bound with A Dfg- Out Inhibitor AP24589 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:F1

b:27.5
occ:1.00
F3 B:XY31 0.0 27.5 1.0
C19 B:XY31 1.3 27.4 1.0
F2 B:XY31 2.1 27.6 1.0
F1 B:XY31 2.2 26.0 1.0
C17 B:XY31 2.4 25.9 1.0
C16 B:XY31 3.0 25.2 1.0
C20 B:XY31 3.0 24.7 1.0
CD1 B:ILE293 3.2 27.1 1.0
C18 B:XY31 3.5 25.4 1.0
CD2 B:LEU298 3.6 22.8 1.0
CD2 B:LEU354 4.2 25.6 1.0
CG2 B:ILE293 4.4 29.0 1.0
C15 B:XY31 4.4 25.8 1.0
N3 B:XY31 4.4 25.8 1.0
CG1 B:ILE293 4.5 29.8 1.0
CD1 B:LEU354 4.5 27.2 1.0
CG B:LEU298 4.6 23.2 1.0
C13 B:XY31 4.8 25.3 1.0
CB B:LEU298 4.9 22.3 1.0
CB B:ILE293 4.9 31.6 1.0
CD1 B:LEU298 4.9 21.5 1.0
O B:VAL379 4.9 18.8 1.0
CG B:LEU354 4.9 27.1 1.0
C21 B:XY31 5.0 25.2 1.0

Reference:

T.Zhou, L.Commodore, W.S.Huang, Y.Wang, M.Thomas, J.Keats, Q.Xu, V.M.Rivera, W.C.Shakespeare, T.Clackson, D.C.Dalgarno, X.Zhu. Structural Mechanism of the Pan-Bcr-Abl Inhibitor Ponatinib (AP24534): Lessons For Overcoming Kinase Inhibitor Resistance. Chem.Biol.Drug Des. V. 77 1 2011.
ISSN: ISSN 1747-0277
PubMed: 21118377
DOI: 10.1111/J.1747-0285.2010.01054.X
Page generated: Wed Jul 31 21:28:57 2024

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