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Fluorine in PDB 6n3l: Identification of Novel, Potent and Selective GCN2 Inhibitors As First-in-Class Anti-Tumor Agents

Enzymatic activity of Identification of Novel, Potent and Selective GCN2 Inhibitors As First-in-Class Anti-Tumor Agents

All present enzymatic activity of Identification of Novel, Potent and Selective GCN2 Inhibitors As First-in-Class Anti-Tumor Agents:
2.7.11.1;

Protein crystallography data

The structure of Identification of Novel, Potent and Selective GCN2 Inhibitors As First-in-Class Anti-Tumor Agents, PDB code: 6n3l was solved by I.D.Hoffman, J.Fujimoto, O.Kurasawa, T.Takagi, M.G.Klein, G.Kefala, S.C.Ding, D.R.Cary, R.Mizojiri, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 25.00 / 2.61
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 83.886, 122.233, 120.674, 90.00, 90.00, 90.00
R / Rfree (%) 22.3 / 29

Fluorine Binding Sites:

The binding sites of Fluorine atom in the Identification of Novel, Potent and Selective GCN2 Inhibitors As First-in-Class Anti-Tumor Agents (pdb code 6n3l). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total 6 binding sites of Fluorine where determined in the Identification of Novel, Potent and Selective GCN2 Inhibitors As First-in-Class Anti-Tumor Agents, PDB code: 6n3l:
Jump to Fluorine binding site number: 1; 2; 3; 4; 5; 6;

Fluorine binding site 1 out of 6 in 6n3l

Go back to Fluorine Binding Sites List in 6n3l
Fluorine binding site 1 out of 6 in the Identification of Novel, Potent and Selective GCN2 Inhibitors As First-in-Class Anti-Tumor Agents


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 1 of Identification of Novel, Potent and Selective GCN2 Inhibitors As First-in-Class Anti-Tumor Agents within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F2501

b:45.4
occ:1.00
F12 A:KAV2501 0.0 45.4 1.0
C11 A:KAV2501 1.4 47.0 1.0
F13 A:KAV2501 2.1 50.1 1.0
F14 A:KAV2501 2.2 50.2 1.0
C8 A:KAV2501 2.4 51.0 1.0
C9 A:KAV2501 3.2 47.1 1.0
C7 A:KAV2501 3.2 46.0 1.0
CD1 A:LEU643 3.3 45.0 1.0
CE A:MET844 3.3 57.9 1.0
CG2 A:ILE839 3.8 52.8 1.0
CD1 A:ILE839 4.0 50.9 1.0
CG2 A:ILE648 4.3 37.1 1.0
CB A:ILE839 4.4 45.2 1.0
C6 A:KAV2501 4.4 51.7 1.0
C10 A:KAV2501 4.4 49.4 1.0
CD1 A:ILE648 4.6 37.2 1.0
SD A:MET844 4.6 64.4 1.0
CG A:LEU643 4.7 50.9 1.0
CD2 A:LEU640 4.7 51.2 1.0
CG1 A:ILE839 4.8 48.1 1.0
C5 A:KAV2501 4.9 51.6 1.0

Fluorine binding site 2 out of 6 in 6n3l

Go back to Fluorine Binding Sites List in 6n3l
Fluorine binding site 2 out of 6 in the Identification of Novel, Potent and Selective GCN2 Inhibitors As First-in-Class Anti-Tumor Agents


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 2 of Identification of Novel, Potent and Selective GCN2 Inhibitors As First-in-Class Anti-Tumor Agents within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F2501

b:50.1
occ:1.00
F13 A:KAV2501 0.0 50.1 1.0
C11 A:KAV2501 1.3 47.0 1.0
F12 A:KAV2501 2.1 45.4 1.0
C8 A:KAV2501 2.2 51.0 1.0
F14 A:KAV2501 2.3 50.2 1.0
C9 A:KAV2501 2.5 47.1 1.0
C7 A:KAV2501 3.5 46.0 1.0
CD2 A:HIS846 3.5 49.1 1.0
CD1 A:ILE839 3.8 50.9 1.0
C10 A:KAV2501 3.9 49.4 1.0
CE A:MET844 4.0 57.9 1.0
CG A:HIS846 4.1 50.5 1.0
NE2 A:HIS846 4.2 48.6 1.0
CA A:HIS846 4.4 45.2 1.0
CB A:HIS846 4.4 47.0 1.0
C6 A:KAV2501 4.5 51.7 1.0
C5 A:KAV2501 4.7 51.6 1.0
ND1 A:HIS846 4.9 48.6 1.0
CG2 A:ILE864 5.0 40.1 1.0
CG1 A:ILE839 5.0 48.1 1.0
CE1 A:HIS846 5.0 55.2 1.0

Fluorine binding site 3 out of 6 in 6n3l

Go back to Fluorine Binding Sites List in 6n3l
Fluorine binding site 3 out of 6 in the Identification of Novel, Potent and Selective GCN2 Inhibitors As First-in-Class Anti-Tumor Agents


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 3 of Identification of Novel, Potent and Selective GCN2 Inhibitors As First-in-Class Anti-Tumor Agents within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F2501

b:50.2
occ:1.00
F14 A:KAV2501 0.0 50.2 1.0
C11 A:KAV2501 1.4 47.0 1.0
F12 A:KAV2501 2.2 45.4 1.0
F13 A:KAV2501 2.3 50.1 1.0
C8 A:KAV2501 2.4 51.0 1.0
C7 A:KAV2501 2.8 46.0 1.0
CG2 A:ILE864 3.5 40.1 1.0
C9 A:KAV2501 3.6 47.1 1.0
CD1 A:ILE648 3.7 37.2 1.0
CD1 A:ILE839 3.8 50.9 1.0
O A:ILE864 3.8 40.4 1.0
CB A:ILE864 4.0 39.8 1.0
CD2 A:HIS846 4.0 49.1 1.0
CG2 A:ILE648 4.1 37.1 1.0
C6 A:KAV2501 4.1 51.7 1.0
C A:ILE864 4.2 39.4 1.0
CG2 A:ILE839 4.3 52.8 1.0
NE2 A:HIS846 4.5 48.6 1.0
N A:GLY865 4.7 43.0 1.0
CA A:ILE864 4.8 39.4 1.0
C10 A:KAV2501 4.8 49.4 1.0
CG1 A:ILE648 4.9 38.5 1.0
CA A:GLY865 4.9 42.6 1.0
O A:GLY865 5.0 42.5 1.0
CD1 A:LEU643 5.0 45.0 1.0
C5 A:KAV2501 5.0 51.6 1.0

Fluorine binding site 4 out of 6 in 6n3l

Go back to Fluorine Binding Sites List in 6n3l
Fluorine binding site 4 out of 6 in the Identification of Novel, Potent and Selective GCN2 Inhibitors As First-in-Class Anti-Tumor Agents


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 4 of Identification of Novel, Potent and Selective GCN2 Inhibitors As First-in-Class Anti-Tumor Agents within 5.0Å range:
probe atom residue distance (Å) B Occ
B:F2501

b:47.8
occ:1.00
F12 B:KAV2501 0.0 47.8 1.0
C11 B:KAV2501 1.4 47.9 1.0
F14 B:KAV2501 2.2 49.8 1.0
F13 B:KAV2501 2.3 41.1 1.0
C8 B:KAV2501 2.3 50.5 1.0
C7 B:KAV2501 2.9 47.5 1.0
CD1 B:LEU643 3.2 51.7 1.0
C9 B:KAV2501 3.4 50.2 1.0
CG2 B:ILE648 3.5 45.9 1.0
CG2 B:ILE839 3.7 53.2 1.0
CD1 B:ILE648 4.0 40.9 1.0
C6 B:KAV2501 4.1 48.5 1.0
CE B:MET844 4.2 64.8 1.0
CD1 B:ILE839 4.3 53.6 1.0
C10 B:KAV2501 4.6 50.5 1.0
CB B:ILE839 4.6 50.7 1.0
CG B:LEU643 4.6 54.4 1.0
CG1 B:ILE648 4.7 42.5 1.0
CB B:ILE648 4.7 42.7 1.0
CD2 B:LEU640 4.7 59.5 1.0
C5 B:KAV2501 4.9 51.2 1.0
SD B:MET844 5.0 66.2 1.0
O B:ILE864 5.0 40.3 1.0

Fluorine binding site 5 out of 6 in 6n3l

Go back to Fluorine Binding Sites List in 6n3l
Fluorine binding site 5 out of 6 in the Identification of Novel, Potent and Selective GCN2 Inhibitors As First-in-Class Anti-Tumor Agents


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 5 of Identification of Novel, Potent and Selective GCN2 Inhibitors As First-in-Class Anti-Tumor Agents within 5.0Å range:
probe atom residue distance (Å) B Occ
B:F2501

b:41.1
occ:1.00
F13 B:KAV2501 0.0 41.1 1.0
C11 B:KAV2501 1.4 47.9 1.0
F14 B:KAV2501 2.2 49.8 1.0
C8 B:KAV2501 2.2 50.5 1.0
F12 B:KAV2501 2.3 47.8 1.0
C9 B:KAV2501 2.5 50.2 1.0
CE B:MET844 3.4 64.8 1.0
C7 B:KAV2501 3.5 47.5 1.0
CD2 B:HIS846 3.8 42.2 1.0
C10 B:KAV2501 3.8 50.5 1.0
CD1 B:ILE839 3.9 53.6 1.0
CG B:HIS846 4.3 42.8 1.0
CA B:HIS846 4.5 42.0 1.0
NE2 B:HIS846 4.5 41.8 1.0
C6 B:KAV2501 4.6 48.5 1.0
CB B:HIS846 4.6 43.3 1.0
CD1 B:LEU643 4.7 51.7 1.0
C5 B:KAV2501 4.7 51.2 1.0
CG2 B:ILE839 4.7 53.2 1.0
SD B:MET844 4.9 66.2 1.0
CB B:ILE839 5.0 50.7 1.0
CG1 B:ILE839 5.0 51.3 1.0

Fluorine binding site 6 out of 6 in 6n3l

Go back to Fluorine Binding Sites List in 6n3l
Fluorine binding site 6 out of 6 in the Identification of Novel, Potent and Selective GCN2 Inhibitors As First-in-Class Anti-Tumor Agents


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 6 of Identification of Novel, Potent and Selective GCN2 Inhibitors As First-in-Class Anti-Tumor Agents within 5.0Å range:
probe atom residue distance (Å) B Occ
B:F2501

b:49.8
occ:1.00
F14 B:KAV2501 0.0 49.8 1.0
C11 B:KAV2501 1.4 47.9 1.0
F12 B:KAV2501 2.2 47.8 1.0
F13 B:KAV2501 2.2 41.1 1.0
C8 B:KAV2501 2.5 50.5 1.0
CD2 B:HIS846 3.2 42.2 1.0
C7 B:KAV2501 3.2 47.5 1.0
CG2 B:ILE864 3.4 42.3 1.0
C9 B:KAV2501 3.5 50.2 1.0
CD1 B:ILE839 3.6 53.6 1.0
NE2 B:HIS846 3.9 41.8 1.0
CB B:ILE864 4.1 44.6 1.0
CD1 B:ILE648 4.1 40.9 1.0
CG B:HIS846 4.2 42.8 1.0
O B:ILE864 4.3 40.3 1.0
CG2 B:ILE839 4.4 53.2 1.0
C B:ILE864 4.5 40.9 1.0
C6 B:KAV2501 4.5 48.5 1.0
CG2 B:ILE648 4.6 45.9 1.0
C10 B:KAV2501 4.7 50.5 1.0
CB B:HIS846 4.8 43.3 1.0
O B:GLY865 4.8 45.7 1.0
N B:GLY865 4.9 41.3 1.0
CG1 B:ILE839 4.9 51.3 1.0
CA B:ILE864 4.9 45.3 1.0
CA B:GLY865 5.0 44.0 1.0

Reference:

J.Fujimoto, O.Kurasawa, T.Takagi, X.Liu, H.Banno, T.Kojima, Y.Asano, A.Nakamura, T.Nambu, A.Hata, T.Ishii, T.Sameshima, Y.Debori, M.Miyamoto, M.G.Klein, R.Tjhen, B.C.Sang, I.Levin, S.W.Lane, G.P.Snell, K.Li, G.Kefala, I.D.Hoffman, S.C.Ding, D.R.Cary, R.Mizojiri. Identification of Novel, Potent, and Orally Available GCN2 Inhibitors with Type I Half Binding Mode. Acs Med.Chem.Lett. V. 10 1498 2019.
ISSN: ISSN 1948-5875
PubMed: 31620240
DOI: 10.1021/ACSMEDCHEMLETT.9B00400
Page generated: Tue Jul 15 13:16:08 2025

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