Atomistry » Fluorine » PDB 6onv-6p3p » 6p1d
Atomistry »
  Fluorine »
    PDB 6onv-6p3p »
      6p1d »

Fluorine in PDB 6p1d: Crystal Structure of Egfr with Mutant-Selective Dihydrodibenzodiazepinone Allosteric Inhibitor

Enzymatic activity of Crystal Structure of Egfr with Mutant-Selective Dihydrodibenzodiazepinone Allosteric Inhibitor

All present enzymatic activity of Crystal Structure of Egfr with Mutant-Selective Dihydrodibenzodiazepinone Allosteric Inhibitor:
2.7.10.1;

Protein crystallography data

The structure of Crystal Structure of Egfr with Mutant-Selective Dihydrodibenzodiazepinone Allosteric Inhibitor, PDB code: 6p1d was solved by D.E.Heppner, M.J.Eck, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 65.17 / 2.40
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 71.946, 101.812, 86.510, 90.00, 101.04, 90.00
R / Rfree (%) 19.5 / 21.3

Other elements in 6p1d:

The structure of Crystal Structure of Egfr with Mutant-Selective Dihydrodibenzodiazepinone Allosteric Inhibitor also contains other interesting chemical elements:

Magnesium (Mg) 4 atoms

Fluorine Binding Sites:

The binding sites of Fluorine atom in the Crystal Structure of Egfr with Mutant-Selective Dihydrodibenzodiazepinone Allosteric Inhibitor (pdb code 6p1d). 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 Egfr with Mutant-Selective Dihydrodibenzodiazepinone Allosteric Inhibitor, PDB code: 6p1d:
Jump to Fluorine binding site number: 1; 2; 3;

Fluorine binding site 1 out of 3 in 6p1d

Go back to Fluorine Binding Sites List in 6p1d
Fluorine binding site 1 out of 3 in the Crystal Structure of Egfr with Mutant-Selective Dihydrodibenzodiazepinone Allosteric Inhibitor


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 Egfr with Mutant-Selective Dihydrodibenzodiazepinone Allosteric Inhibitor within 5.0Å range:
probe atom residue distance (Å) B Occ
D:F1101

b:31.7
occ:1.00
F03 D:NQ11101 0.0 31.7 1.0
C02 D:NQ11101 1.4 29.4 1.0
C01 D:NQ11101 2.4 29.9 1.0
C04 D:NQ11101 2.4 31.7 1.0
C D:ARG776 3.2 25.7 1.0
CB D:CYS775 3.2 21.5 1.0
O D:ARG776 3.2 22.4 1.0
C D:CYS775 3.2 27.0 1.0
O D:CYS775 3.3 26.9 1.0
N D:LEU777 3.4 26.7 1.0
N D:ARG776 3.5 27.4 1.0
CE D:MET790 3.6 21.2 1.0
SD D:MET790 3.7 32.3 1.0
C05 D:NQ11101 3.7 29.2 1.0
C07 D:NQ11101 3.7 31.6 1.0
CA D:ARG776 3.8 29.6 1.0
CA D:CYS775 3.8 26.7 1.0
CA D:LEU777 3.9 25.8 1.0
CB D:MET790 4.0 21.3 1.0
C06 D:NQ11101 4.1 33.6 1.0
OG1 D:THR854 4.3 22.4 1.0
O D:HOH1209 4.3 27.3 1.0
CG D:MET790 4.5 24.4 1.0
CB D:LEU777 4.6 25.4 1.0
SG D:CYS775 4.7 21.2 1.0
N17 D:NQ11101 4.9 33.5 1.0
N D:CYS775 5.0 26.6 1.0

Fluorine binding site 2 out of 3 in 6p1d

Go back to Fluorine Binding Sites List in 6p1d
Fluorine binding site 2 out of 3 in the Crystal Structure of Egfr with Mutant-Selective Dihydrodibenzodiazepinone Allosteric Inhibitor


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 Egfr with Mutant-Selective Dihydrodibenzodiazepinone Allosteric Inhibitor within 5.0Å range:
probe atom residue distance (Å) B Occ
B:F1102

b:35.1
occ:1.00
F03 B:NQ11102 0.0 35.1 1.0
C02 B:NQ11102 1.4 33.6 1.0
C01 B:NQ11102 2.4 34.6 1.0
C04 B:NQ11102 2.4 31.1 1.0
CB B:CYS775 3.1 25.4 1.0
C B:CYS775 3.2 23.5 1.0
O B:CYS775 3.2 23.6 1.0
C B:ARG776 3.2 25.1 1.0
O B:ARG776 3.2 24.1 1.0
N B:ARG776 3.4 26.7 1.0
N B:LEU777 3.5 27.8 1.0
CE B:MET790 3.5 28.7 1.0
C07 B:NQ11102 3.7 34.2 1.0
C05 B:NQ11102 3.7 30.4 1.0
SD B:MET790 3.7 33.1 1.0
CA B:CYS775 3.7 22.1 1.0
CA B:ARG776 3.8 29.6 1.0
CA B:LEU777 4.0 26.3 1.0
C06 B:NQ11102 4.2 36.5 1.0
CB B:MET790 4.2 26.9 1.0
OG1 B:THR854 4.2 23.4 1.0
O B:HOH1224 4.5 24.0 1.0
CG B:MET790 4.6 26.3 1.0
SG B:CYS775 4.7 24.0 1.0
CB B:LEU777 4.7 26.1 1.0
N B:CYS775 4.8 23.2 1.0
N17 B:NQ11102 4.9 32.3 1.0

Fluorine binding site 3 out of 3 in 6p1d

Go back to Fluorine Binding Sites List in 6p1d
Fluorine binding site 3 out of 3 in the Crystal Structure of Egfr with Mutant-Selective Dihydrodibenzodiazepinone Allosteric Inhibitor


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 Egfr with Mutant-Selective Dihydrodibenzodiazepinone Allosteric Inhibitor within 5.0Å range:
probe atom residue distance (Å) B Occ
C:F1101

b:26.0
occ:1.00
F03 C:NQ11101 0.0 26.0 1.0
C02 C:NQ11101 1.4 26.5 1.0
C01 C:NQ11101 2.4 25.0 1.0
C04 C:NQ11101 2.4 23.5 1.0
O C:ARG776 3.2 22.6 1.0
C C:ARG776 3.2 21.9 1.0
CB C:CYS775 3.2 22.9 1.0
C C:CYS775 3.4 24.1 1.0
CE C:MET790 3.4 24.3 1.0
N C:ARG776 3.5 22.5 1.0
O C:CYS775 3.6 20.3 1.0
N C:LEU777 3.6 21.4 1.0
SD C:MET790 3.7 26.8 1.0
C05 C:NQ11101 3.7 23.8 1.0
C07 C:NQ11101 3.7 26.8 1.0
CA C:ARG776 3.7 27.7 1.0
CA C:CYS775 3.9 26.7 1.0
OG1 C:THR854 4.1 26.6 1.0
CA C:LEU777 4.1 24.6 1.0
C06 C:NQ11101 4.1 32.4 1.0
CB C:MET790 4.2 19.3 1.0
CG C:MET790 4.6 25.4 1.0
CB C:LEU777 4.8 23.5 1.0
SG C:CYS775 4.8 23.7 1.0
O C:HOH1233 4.8 23.4 1.0
N17 C:NQ11101 4.9 30.3 1.0

Reference:

D.J.H.De Clercq, D.E.Heppner, C.To, J.Jang, E.Park, C.H.Yun, M.Mushajiang, B.H.Shin, T.W.Gero, D.A.Scott, P.A.Janne, M.J.Eck, N.S.Gray. Discovery and Optimization of Dibenzodiazepinones As Allosteric Mutant-Selective Egfr Inhibitors. Acs Med.Chem.Lett. V. 10 1549 2019.
ISSN: ISSN 1948-5875
PubMed: 31749909
DOI: 10.1021/ACSMEDCHEMLETT.9B00381
Page generated: Fri Aug 2 00:03:24 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy