Fluorine in PDB 7k0v: Crystal Structure of Braf in Complex with Inhibitor Gne-0749

Enzymatic activity of Crystal Structure of Braf in Complex with Inhibitor Gne-0749

All present enzymatic activity of Crystal Structure of Braf in Complex with Inhibitor Gne-0749:
2.7.11.1;

Protein crystallography data

The structure of Crystal Structure of Braf in Complex with Inhibitor Gne-0749, PDB code: 7k0v was solved by J.Yin, C.E.Eigenbrot, W.Wang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 49.27 / 1.93
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 87.254, 115.354, 119.39, 90, 90, 90
R / Rfree (%) 18.4 / 23

Other elements in 7k0v:

The structure of Crystal Structure of Braf in Complex with Inhibitor Gne-0749 also contains other interesting chemical elements:

Chlorine (Cl) 2 atoms

Fluorine Binding Sites:

The binding sites of Fluorine atom in the Crystal Structure of Braf in Complex with Inhibitor Gne-0749 (pdb code 7k0v). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total 8 binding sites of Fluorine where determined in the Crystal Structure of Braf in Complex with Inhibitor Gne-0749, PDB code: 7k0v:
Jump to Fluorine binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Fluorine binding site 1 out of 8 in 7k0v

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Fluorine binding site 1 out of 8 in the Crystal Structure of Braf in Complex with Inhibitor Gne-0749


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 Braf in Complex with Inhibitor Gne-0749 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F801

b:27.9
occ:1.00
F15 A:VQP801 0.0 27.9 1.0
C14 A:VQP801 1.4 25.9 1.0
C9 A:VQP801 2.4 24.3 1.0
C13 A:VQP801 2.4 23.4 1.0
O17 A:VQP801 2.5 28.1 1.0
N8 A:VQP801 2.6 22.8 1.0
C16 A:VQP801 2.8 25.5 1.0
C10 A:VQP801 3.6 22.9 1.0
C12 A:VQP801 3.7 23.2 1.0
CD1 A:LEU597 3.7 35.6 1.0
CD1 A:PHE595 3.7 27.5 1.0
CG1 A:VAL471 3.8 23.8 1.0
CG2 A:VAL471 4.0 28.1 1.0
C7 A:VQP801 4.0 23.9 1.0
C11 A:VQP801 4.1 21.2 1.0
N18 A:VQP801 4.2 23.3 1.0
CA A:PHE595 4.2 30.0 1.0
CB A:VAL471 4.3 29.1 1.0
CG A:LEU597 4.4 37.7 1.0
O A:ASP594 4.4 31.4 1.0
CE1 A:PHE595 4.5 24.9 1.0
CB A:PHE595 4.5 28.2 1.0
CG A:PHE595 4.6 28.8 1.0
CD2 A:LEU597 4.7 37.8 1.0
N20 A:VQP801 4.7 26.4 1.0
O A:PHE595 4.7 31.1 1.0
C A:PHE595 4.8 32.0 1.0
C6 A:VQP801 4.8 26.1 1.0
C1 A:VQP801 4.8 26.1 1.0
C2 A:VQP801 4.8 23.8 1.0
C19 A:VQP801 4.9 25.9 1.0

Fluorine binding site 2 out of 8 in 7k0v

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Fluorine binding site 2 out of 8 in the Crystal Structure of Braf in Complex with Inhibitor Gne-0749


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 Braf in Complex with Inhibitor Gne-0749 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F801

b:26.6
occ:1.00
F32 A:VQP801 0.0 26.6 1.0
C4 A:VQP801 1.3 24.7 1.0
C3 A:VQP801 2.3 24.7 1.0
C5 A:VQP801 2.3 25.2 1.0
N22 A:VQP801 2.7 25.0 1.0
CD1 A:LEU505 3.2 25.9 1.0
CG2 A:ILE527 3.2 23.6 1.0
OE1 A:GLU501 3.5 32.1 1.0
C2 A:VQP801 3.6 23.8 1.0
C6 A:VQP801 3.6 26.1 1.0
CD1 A:ILE527 3.7 27.5 1.0
CB A:ILE527 3.8 23.9 1.0
CD A:GLU501 3.8 31.5 1.0
C23 A:VQP801 3.8 23.2 1.0
CE A:LYS483 4.0 37.1 1.0
C7 A:VQP801 4.1 23.9 1.0
CG A:GLU501 4.2 28.9 1.0
NZ A:LYS483 4.2 39.9 1.0
CG1 A:ILE527 4.3 26.4 1.0
CG2 A:THR529 4.4 20.3 1.0
OE2 A:GLU501 4.4 36.8 1.0
O24 A:VQP801 4.5 23.1 1.0
N25 A:VQP801 4.6 26.7 1.0
CG A:LEU505 4.6 27.6 1.0
C1 A:VQP801 4.8 26.1 1.0
CD A:LYS483 4.9 33.0 1.0
CB A:LYS483 4.9 27.9 1.0

Fluorine binding site 3 out of 8 in 7k0v

Go back to Fluorine Binding Sites List in 7k0v
Fluorine binding site 3 out of 8 in the Crystal Structure of Braf in Complex with Inhibitor Gne-0749


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 Braf in Complex with Inhibitor Gne-0749 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:F801

b:29.4
occ:1.00
F15 B:VQP801 0.0 29.4 1.0
C14 B:VQP801 1.4 28.9 1.0
C9 B:VQP801 2.3 28.5 1.0
C13 B:VQP801 2.4 27.7 1.0
N8 B:VQP801 2.6 27.3 1.0
O17 B:VQP801 2.7 33.4 1.0
C16 B:VQP801 2.9 28.7 1.0
CG1 B:VAL471 3.6 31.6 1.0
C10 B:VQP801 3.6 25.9 1.0
CD1 B:PHE595 3.6 30.9 1.0
CG2 B:VAL471 3.7 34.6 1.0
C12 B:VQP801 3.7 27.5 1.0
CD2 B:LEU597 3.9 61.8 1.0
C7 B:VQP801 3.9 28.7 1.0
O B:ASP594 4.0 38.7 1.0
CA B:PHE595 4.0 36.9 1.0
CB B:VAL471 4.1 33.7 1.0
C11 B:VQP801 4.1 27.2 1.0
N18 B:VQP801 4.3 29.2 1.0
CE1 B:PHE595 4.3 30.8 1.0
O B:PHE595 4.4 44.1 1.0
CG B:PHE595 4.4 31.8 1.0
CB B:PHE595 4.5 32.4 1.0
C B:PHE595 4.6 41.5 1.0
CG B:LEU597 4.6 72.6 1.0
C1 B:VQP801 4.6 26.8 1.0
C2 B:VQP801 4.7 27.7 1.0
N20 B:VQP801 4.8 28.6 1.0
C6 B:VQP801 4.8 29.4 1.0
C B:ASP594 4.9 34.2 1.0
N B:PHE595 5.0 34.4 1.0

Fluorine binding site 4 out of 8 in 7k0v

Go back to Fluorine Binding Sites List in 7k0v
Fluorine binding site 4 out of 8 in the Crystal Structure of Braf in Complex with Inhibitor Gne-0749


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 Braf in Complex with Inhibitor Gne-0749 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:F801

b:31.3
occ:1.00
F32 B:VQP801 0.0 31.3 1.0
C4 B:VQP801 1.3 29.0 1.0
C3 B:VQP801 2.3 27.5 1.0
C5 B:VQP801 2.3 27.6 1.0
N22 B:VQP801 2.7 25.7 1.0
CD1 B:LEU505 3.1 28.2 1.0
CG2 B:ILE527 3.2 28.3 1.0
OE2 B:GLU501 3.5 33.0 1.0
C2 B:VQP801 3.6 27.7 1.0
C6 B:VQP801 3.6 29.4 1.0
CB B:ILE527 3.7 29.7 1.0
CE B:LYS483 3.8 34.5 1.0
CD1 B:ILE527 3.9 33.2 1.0
CD B:GLU501 3.9 33.3 1.0
C23 B:VQP801 3.9 26.2 1.0
C7 B:VQP801 4.1 28.7 1.0
CG2 B:THR529 4.2 23.2 1.0
CG1 B:ILE527 4.4 31.7 1.0
CG B:GLU501 4.4 34.2 1.0
OE1 B:GLU501 4.4 29.7 1.0
CG B:LEU505 4.4 27.9 1.0
O24 B:VQP801 4.6 26.5 1.0
N25 B:VQP801 4.6 27.9 1.0
CD2 B:LEU505 4.7 24.9 1.0
CB B:LYS483 4.7 32.4 1.0
CD B:LYS483 4.7 37.5 1.0
C1 B:VQP801 4.8 26.8 1.0
NZ B:LYS483 4.9 37.1 1.0
CA B:ILE527 5.0 31.8 1.0

Fluorine binding site 5 out of 8 in 7k0v

Go back to Fluorine Binding Sites List in 7k0v
Fluorine binding site 5 out of 8 in the Crystal Structure of Braf in Complex with Inhibitor Gne-0749


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 Braf in Complex with Inhibitor Gne-0749 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:F801

b:27.4
occ:1.00
F15 C:VQP801 0.0 27.4 1.0
C14 C:VQP801 1.4 24.8 1.0
C9 C:VQP801 2.3 24.6 1.0
C13 C:VQP801 2.4 27.9 1.0
O17 C:VQP801 2.6 25.7 1.0
N8 C:VQP801 2.6 24.2 1.0
C16 C:VQP801 2.9 27.8 1.0
O C:HOH977 3.3 30.2 1.0
CD1 C:PHE595 3.4 27.2 1.0
CG1 C:VAL471 3.6 25.9 1.0
C10 C:VQP801 3.6 22.4 1.0
C12 C:VQP801 3.7 25.6 1.0
O C:HOH971 3.8 36.5 1.0
C7 C:VQP801 4.0 24.0 1.0
CG2 C:VAL471 4.1 29.2 1.0
C11 C:VQP801 4.1 23.6 1.0
CE1 C:PHE595 4.2 24.1 1.0
CB C:PHE595 4.2 26.6 1.0
CG C:PHE595 4.2 25.9 1.0
N18 C:VQP801 4.2 29.9 1.0
CB C:VAL471 4.3 29.5 1.0
CA C:PHE595 4.7 27.3 1.0
C1 C:VQP801 4.7 24.4 1.0
N20 C:VQP801 4.8 27.2 1.0
C2 C:VQP801 4.8 24.6 1.0
C6 C:VQP801 4.9 23.1 1.0
C19 C:VQP801 5.0 26.9 1.0
O C:PHE595 5.0 30.6 1.0

Fluorine binding site 6 out of 8 in 7k0v

Go back to Fluorine Binding Sites List in 7k0v
Fluorine binding site 6 out of 8 in the Crystal Structure of Braf in Complex with Inhibitor Gne-0749


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 Braf in Complex with Inhibitor Gne-0749 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:F801

b:25.7
occ:1.00
F32 C:VQP801 0.0 25.7 1.0
C4 C:VQP801 1.3 26.0 1.0
C3 C:VQP801 2.3 23.1 1.0
C5 C:VQP801 2.4 25.2 1.0
N22 C:VQP801 2.7 24.7 1.0
CD1 C:LEU505 3.2 21.7 1.0
CG2 C:ILE527 3.3 22.3 1.0
C2 C:VQP801 3.6 24.6 1.0
C6 C:VQP801 3.6 23.1 1.0
CB C:ILE527 3.7 23.2 1.0
OE2 C:GLU501 3.7 29.1 1.0
C23 C:VQP801 3.8 25.2 1.0
CD C:GLU501 3.8 27.0 1.0
CD1 C:ILE527 3.9 24.4 1.0
C7 C:VQP801 4.1 24.0 1.0
CG2 C:THR529 4.1 17.3 1.0
OE1 C:GLU501 4.2 28.9 1.0
CE C:LYS483 4.3 27.8 1.0
CG C:GLU501 4.3 25.0 1.0
NZ C:LYS483 4.4 29.2 1.0
CG1 C:ILE527 4.5 22.4 1.0
N25 C:VQP801 4.5 25.4 1.0
O24 C:VQP801 4.5 22.6 1.0
CG C:LEU505 4.6 23.3 1.0
CD C:LYS483 4.7 28.5 1.0
C1 C:VQP801 4.8 24.4 1.0
CB C:LYS483 4.9 28.4 1.0

Fluorine binding site 7 out of 8 in 7k0v

Go back to Fluorine Binding Sites List in 7k0v
Fluorine binding site 7 out of 8 in the Crystal Structure of Braf in Complex with Inhibitor Gne-0749


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 7 of Crystal Structure of Braf in Complex with Inhibitor Gne-0749 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:F801

b:28.5
occ:1.00
F15 D:VQP801 0.0 28.5 1.0
C14 D:VQP801 1.4 28.6 1.0
C9 D:VQP801 2.4 26.0 1.0
C13 D:VQP801 2.4 30.3 1.0
O17 D:VQP801 2.6 28.2 1.0
N8 D:VQP801 2.7 25.6 1.0
C16 D:VQP801 2.9 29.1 1.0
O D:HOH956 3.3 30.6 1.0
CD1 D:PHE595 3.5 28.8 1.0
CG1 D:VAL471 3.6 27.3 1.0
C10 D:VQP801 3.6 26.8 1.0
C12 D:VQP801 3.7 28.4 1.0
CG2 D:VAL471 4.0 34.2 1.0
C7 D:VQP801 4.1 26.8 1.0
C11 D:VQP801 4.1 28.9 1.0
N18 D:VQP801 4.2 32.2 1.0
CB D:PHE595 4.3 27.9 1.0
CB D:VAL471 4.3 33.4 1.0
CE1 D:PHE595 4.3 28.9 1.0
CG D:PHE595 4.3 28.2 1.0
CA D:PHE595 4.8 30.1 1.0
N20 D:VQP801 4.8 28.8 1.0
C1 D:VQP801 4.8 25.1 1.0
O D:PHE595 4.8 32.1 1.0
C6 D:VQP801 4.9 28.5 1.0
C2 D:VQP801 4.9 26.7 1.0
C19 D:VQP801 5.0 27.7 1.0

Fluorine binding site 8 out of 8 in 7k0v

Go back to Fluorine Binding Sites List in 7k0v
Fluorine binding site 8 out of 8 in the Crystal Structure of Braf in Complex with Inhibitor Gne-0749


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 8 of Crystal Structure of Braf in Complex with Inhibitor Gne-0749 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:F801

b:28.6
occ:1.00
F32 D:VQP801 0.0 28.6 1.0
C4 D:VQP801 1.3 27.3 1.0
C5 D:VQP801 2.3 27.9 1.0
C3 D:VQP801 2.3 25.2 1.0
N22 D:VQP801 2.6 24.9 1.0
CD1 D:LEU505 3.2 28.0 1.0
CG2 D:ILE527 3.2 27.5 1.0
C2 D:VQP801 3.6 26.7 1.0
C6 D:VQP801 3.6 28.5 1.0
C23 D:VQP801 3.7 29.7 1.0
CB D:ILE527 3.8 28.9 1.0
CD D:GLU501 3.9 33.4 1.0
OE2 D:GLU501 3.9 36.9 1.0
CD1 D:ILE527 3.9 29.2 1.0
C7 D:VQP801 4.1 26.8 1.0
CG2 D:THR529 4.1 22.6 1.0
CG D:GLU501 4.2 32.8 1.0
CE D:LYS483 4.2 28.6 1.0
OE1 D:GLU501 4.2 34.1 1.0
NZ D:LYS483 4.4 31.4 1.0
N25 D:VQP801 4.4 28.4 1.0
O24 D:VQP801 4.5 27.2 1.0
CG1 D:ILE527 4.5 28.1 1.0
CG D:LEU505 4.7 29.1 1.0
C1 D:VQP801 4.8 25.1 1.0

Reference:

M.P.Huestis, D.Dela Cruz, A.G.Dipasquale, M.R.Durk, C.Eigenbrot, P.Gibbons, A.Gobbi, T.L.Hunsaker, H.La, D.H.Leung, W.Liu, S.Malek, M.Merchant, J.G.Moffat, C.S.Muli, C.J.Orr, B.T.Parr, F.Shanahan, C.J.Sneeringer, W.Wang, I.Yen, J.Yin, M.Siu, J.Rudolph. Targeting Kras Mutant Cancers Via Combination Treatment: Discovery of A 5-Fluoro-4-(3 H )-Quinazolinone Aryl Urea Pan-Raf Kinase Inhibitor. J.Med.Chem. V. 64 3940 2021.
ISSN: ISSN 0022-2623
PubMed: 33780623
DOI: 10.1021/ACS.JMEDCHEM.0C02085
Page generated: Sat Jul 10 14:10:17 2021

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