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Fluorine in PDB 7wl4: Crystal Structure of the First Bromodomain of Human BRD4 in Complex with the Inhibitor Slp-50

Protein crystallography data

The structure of Crystal Structure of the First Bromodomain of Human BRD4 in Complex with the Inhibitor Slp-50, PDB code: 7wl4 was solved by C.Zhang, C.Wang, W.Li, Y.Zhang, Y.Xu, L.Sun, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 107.31 / 1.82
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 59.858, 42.484, 107.309, 90, 90, 90
R / Rfree (%) 18.4 / 22.1

Fluorine Binding Sites:

The binding sites of Fluorine atom in the Crystal Structure of the First Bromodomain of Human BRD4 in Complex with the Inhibitor Slp-50 (pdb code 7wl4). 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 the First Bromodomain of Human BRD4 in Complex with the Inhibitor Slp-50, PDB code: 7wl4:
Jump to Fluorine binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Fluorine binding site 1 out of 8 in 7wl4

Go back to Fluorine Binding Sites List in 7wl4
Fluorine binding site 1 out of 8 in the Crystal Structure of the First Bromodomain of Human BRD4 in Complex with the Inhibitor Slp-50


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 First Bromodomain of Human BRD4 in Complex with the Inhibitor Slp-50 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F201

b:19.9
occ:1.00
FAY A:JFU201 0.0 19.9 1.0
CAT A:JFU201 1.4 20.1 1.0
CAU A:JFU201 2.4 18.9 1.0
CAS A:JFU201 2.4 19.6 1.0
OAR A:JFU201 3.0 21.6 1.0
SAP A:JFU201 3.0 20.8 1.0
NAJ A:JFU201 3.2 16.7 1.0
NAO A:JFU201 3.2 19.6 1.0
O B:HOH235 3.3 23.9 1.0
CBE A:JFU201 3.4 18.7 1.0
CAV A:JFU201 3.6 19.7 1.0
CAX A:JFU201 3.6 19.5 1.0
CAA A:JFU201 3.9 16.9 1.0
CAB A:JFU201 3.9 18.2 1.0
CB A:ASP145 3.9 22.1 1.0
OD2 A:ASP145 4.0 25.7 1.0
CAI A:JFU201 4.0 17.3 1.0
CG A:ASP145 4.0 24.8 1.0
NAN A:JFU201 4.0 19.1 1.0
CAW A:JFU201 4.1 19.1 1.0
SD A:MET149 4.2 24.5 1.0
OAQ A:JFU201 4.5 21.3 1.0
FAZ A:JFU202 4.6 28.8 1.0
CBD A:JFU201 4.6 18.7 1.0
CG A:MET149 4.6 21.3 1.0
FAZ A:JFU201 4.7 22.2 1.0
OD1 A:ASP145 4.7 24.1 1.0
CA A:ASP145 4.9 21.5 1.0
O B:HOH281 4.9 37.4 1.0
O A:ASP145 4.9 19.9 1.0

Fluorine binding site 2 out of 8 in 7wl4

Go back to Fluorine Binding Sites List in 7wl4
Fluorine binding site 2 out of 8 in the Crystal Structure of the First Bromodomain of Human BRD4 in Complex with the Inhibitor Slp-50


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 First Bromodomain of Human BRD4 in Complex with the Inhibitor Slp-50 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F201

b:22.2
occ:1.00
FAZ A:JFU201 0.0 22.2 1.0
CAV A:JFU201 1.3 19.7 1.0
CAU A:JFU201 2.3 18.9 1.0
CAW A:JFU201 2.4 19.1 1.0
CAU A:JFU202 3.3 25.7 1.0
CAV A:JFU202 3.3 23.9 1.0
FAZ A:JFU202 3.4 28.8 1.0
N B:ILE146 3.5 19.4 1.0
CB B:ASP145 3.6 24.6 1.0
CAT A:JFU201 3.6 20.1 1.0
CAX A:JFU201 3.6 19.5 1.0
CA B:ILE146 3.7 18.8 1.0
SD B:MET149 3.7 24.1 1.0
CB B:ILE146 3.8 20.0 1.0
C B:ASP145 3.9 20.4 1.0
O A:HOH303 4.0 22.2 1.0
CAT A:JFU202 4.1 26.5 1.0
CAW A:JFU202 4.1 22.6 1.0
CAS A:JFU201 4.1 19.6 1.0
CD1 B:ILE146 4.2 23.1 1.0
OD2 A:ASP145 4.4 25.7 1.0
CA B:ASP145 4.4 21.2 1.0
O B:ASP145 4.5 19.0 1.0
CG1 B:ILE146 4.6 22.5 1.0
FAY A:JFU202 4.7 34.7 1.0
CAX A:JFU202 4.7 23.8 1.0
FAY A:JFU201 4.7 19.9 1.0
CAS A:JFU202 4.7 24.6 1.0
CG B:ASP145 4.8 28.6 1.0
CB A:ASP145 4.9 22.1 1.0
CG B:MET149 5.0 22.1 1.0
OD2 B:ASP145 5.0 31.7 1.0

Fluorine binding site 3 out of 8 in 7wl4

Go back to Fluorine Binding Sites List in 7wl4
Fluorine binding site 3 out of 8 in the Crystal Structure of the First Bromodomain of Human BRD4 in Complex with the Inhibitor Slp-50


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 First Bromodomain of Human BRD4 in Complex with the Inhibitor Slp-50 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F202

b:34.7
occ:1.00
FAY A:JFU202 0.0 34.7 1.0
CAT A:JFU202 1.3 26.5 1.0
CAS A:JFU202 2.3 24.6 1.0
CAU A:JFU202 2.4 25.7 1.0
SAP A:JFU202 3.0 27.9 1.0
OAR A:JFU202 3.0 29.8 1.0
O A:HOH358 3.1 28.1 1.0
O A:HOH378 3.1 41.0 1.0
NAO A:JFU202 3.2 25.4 1.0
NAJ A:JFU202 3.3 22.1 1.0
CBE A:JFU202 3.3 27.0 1.0
CAX A:JFU202 3.6 23.8 1.0
CAV A:JFU202 3.6 23.9 1.0
CAB A:JFU202 4.0 22.7 1.0
CAA A:JFU202 4.0 23.4 1.0
CAW A:JFU202 4.1 22.6 1.0
NAN A:JFU202 4.1 25.0 1.0
CAI A:JFU202 4.2 23.2 1.0
SD B:MET149 4.4 24.1 1.0
OAQ A:JFU202 4.4 25.0 1.0
CBD A:JFU202 4.4 27.5 1.0
CB B:ASP145 4.5 24.6 1.0
CG B:ASP145 4.7 28.6 1.0
FAZ A:JFU201 4.7 22.2 1.0
FAZ A:JFU202 4.7 28.8 1.0
CG B:MET149 4.9 22.1 1.0
OD2 B:ASP145 4.9 31.7 1.0
OD1 B:ASP145 5.0 30.8 1.0

Fluorine binding site 4 out of 8 in 7wl4

Go back to Fluorine Binding Sites List in 7wl4
Fluorine binding site 4 out of 8 in the Crystal Structure of the First Bromodomain of Human BRD4 in Complex with the Inhibitor Slp-50


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 the First Bromodomain of Human BRD4 in Complex with the Inhibitor Slp-50 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F202

b:28.8
occ:1.00
FAZ A:JFU202 0.0 28.8 1.0
CAV A:JFU202 1.3 23.9 1.0
CAW A:JFU202 2.3 22.6 1.0
CAU A:JFU202 2.3 25.7 1.0
CAU A:JFU201 3.3 18.9 1.0
CB A:ASP145 3.4 22.1 1.0
O B:HOH222 3.4 24.6 1.0
N A:ILE146 3.4 20.2 1.0
FAZ A:JFU201 3.4 22.2 1.0
CAV A:JFU201 3.4 19.7 1.0
CAX A:JFU202 3.5 23.8 1.0
CAT A:JFU202 3.6 26.5 1.0
CA A:ILE146 3.8 20.2 1.0
CB A:ILE146 3.8 22.0 1.0
C A:ASP145 3.8 19.8 1.0
CAS A:JFU202 4.1 24.6 1.0
CAT A:JFU201 4.1 20.1 1.0
SD A:MET149 4.1 24.5 1.0
CA A:ASP145 4.2 21.5 1.0
OD2 B:ASP145 4.2 31.7 1.0
CAW A:JFU201 4.3 19.1 1.0
CD1 A:ILE146 4.5 26.2 1.0
CG A:ASP145 4.5 24.8 1.0
O A:ASP145 4.5 19.9 1.0
FAY A:JFU201 4.6 19.9 1.0
OD2 A:ASP145 4.6 25.7 1.0
CG1 A:ILE146 4.6 24.1 1.0
CB B:ASP145 4.7 24.6 1.0
FAY A:JFU202 4.7 34.7 1.0
CAS A:JFU201 4.8 19.6 1.0
CG B:ASP145 4.9 28.6 1.0
CAX A:JFU201 4.9 19.5 1.0
CG2 A:ILE146 5.0 21.3 1.0

Fluorine binding site 5 out of 8 in 7wl4

Go back to Fluorine Binding Sites List in 7wl4
Fluorine binding site 5 out of 8 in the Crystal Structure of the First Bromodomain of Human BRD4 in Complex with the Inhibitor Slp-50


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 the First Bromodomain of Human BRD4 in Complex with the Inhibitor Slp-50 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:F201

b:33.8
occ:1.00
FAY C:JFU201 0.0 33.8 1.0
CAT C:JFU201 1.3 24.6 1.0
CAS C:JFU201 2.3 23.5 1.0
CAU C:JFU201 2.3 24.6 1.0
SAP C:JFU201 2.9 27.0 1.0
OAR C:JFU201 2.9 29.9 1.0
O C:HOH350 3.1 29.2 1.0
NAO C:JFU201 3.1 25.3 1.0
O C:HOH373 3.1 39.4 1.0
NAJ C:JFU201 3.3 21.7 1.0
CBE C:JFU201 3.4 25.9 1.0
CAV C:JFU201 3.5 21.8 1.0
CAX C:JFU201 3.5 22.1 1.0
CAB C:JFU201 3.9 22.7 1.0
CAA C:JFU201 4.0 22.9 1.0
CAW C:JFU201 4.0 20.9 1.0
NAN C:JFU201 4.2 23.5 1.0
CAI C:JFU201 4.2 22.8 1.0
OAQ C:JFU201 4.3 25.8 1.0
SD D:MET149 4.3 23.5 1.0
CBD C:JFU201 4.5 25.5 1.0
FAZ C:JFU201 4.6 27.6 1.0
CB D:ASP145 4.6 23.8 1.0
FAZ D:JFU201 4.7 20.9 1.0
CG D:ASP145 4.7 27.6 1.0
CG D:MET149 4.9 20.9 1.0

Fluorine binding site 6 out of 8 in 7wl4

Go back to Fluorine Binding Sites List in 7wl4
Fluorine binding site 6 out of 8 in the Crystal Structure of the First Bromodomain of Human BRD4 in Complex with the Inhibitor Slp-50


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 the First Bromodomain of Human BRD4 in Complex with the Inhibitor Slp-50 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:F201

b:27.6
occ:1.00
FAZ C:JFU201 0.0 27.6 1.0
CAV C:JFU201 1.3 21.8 1.0
CAW C:JFU201 2.3 20.9 1.0
CAU C:JFU201 2.3 24.6 1.0
O D:HOH309 3.3 26.4 1.0
CAU D:JFU201 3.3 19.0 1.0
N C:ILE146 3.4 20.4 1.0
FAZ D:JFU201 3.4 20.9 1.0
CB C:ASP145 3.4 22.6 1.0
CAV D:JFU201 3.5 18.9 1.0
CAT C:JFU201 3.5 24.6 1.0
CAX C:JFU201 3.5 22.1 1.0
CB C:ILE146 3.9 22.2 1.0
CA C:ILE146 3.9 20.3 1.0
C C:ASP145 3.9 20.7 1.0
CAS C:JFU201 4.0 23.5 1.0
OD2 D:ASP145 4.1 31.8 1.0
CAT D:JFU201 4.2 20.0 1.0
SD C:MET149 4.2 23.3 1.0
CA C:ASP145 4.2 21.5 1.0
CAW D:JFU201 4.4 19.3 1.0
CD1 C:ILE146 4.4 23.9 1.0
CB D:ASP145 4.5 23.8 1.0
FAY C:JFU201 4.6 33.8 1.0
CG C:ASP145 4.6 25.5 1.0
O C:ASP145 4.6 20.0 1.0
OD2 C:ASP145 4.6 26.1 1.0
FAY D:JFU201 4.7 20.5 1.0
CG D:ASP145 4.7 27.6 1.0
CG1 C:ILE146 4.7 23.6 1.0
CG2 C:ILE146 4.9 21.6 1.0
CAS D:JFU201 4.9 20.0 1.0

Fluorine binding site 7 out of 8 in 7wl4

Go back to Fluorine Binding Sites List in 7wl4
Fluorine binding site 7 out of 8 in the Crystal Structure of the First Bromodomain of Human BRD4 in Complex with the Inhibitor Slp-50


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 the First Bromodomain of Human BRD4 in Complex with the Inhibitor Slp-50 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:F201

b:20.5
occ:1.00
FAY D:JFU201 0.0 20.5 1.0
CAT D:JFU201 1.4 20.0 1.0
CAU D:JFU201 2.4 19.0 1.0
CAS D:JFU201 2.4 20.0 1.0
OAR D:JFU201 3.0 21.8 1.0
SAP D:JFU201 3.0 21.4 1.0
NAJ D:JFU201 3.2 14.6 1.0
NAO D:JFU201 3.2 19.2 1.0
O D:HOH354 3.3 21.7 1.0
CBE D:JFU201 3.4 18.5 1.0
CAV D:JFU201 3.6 18.9 1.0
CAX D:JFU201 3.7 19.4 1.0
CAA D:JFU201 3.9 16.0 1.0
CAB D:JFU201 3.9 17.5 1.0
CB C:ASP145 3.9 22.6 1.0
OD2 C:ASP145 4.0 26.1 1.0
CG C:ASP145 4.0 25.5 1.0
CAI D:JFU201 4.0 16.8 1.0
NAN D:JFU201 4.1 17.7 1.0
SD C:MET149 4.2 23.3 1.0
CAW D:JFU201 4.2 19.3 1.0
OAQ D:JFU201 4.5 22.1 1.0
CG C:MET149 4.6 19.9 1.0
CBD D:JFU201 4.6 18.5 1.0
OD1 C:ASP145 4.7 24.0 1.0
FAZ C:JFU201 4.7 27.6 1.0
FAZ D:JFU201 4.7 20.9 1.0
O D:HOH381 4.8 40.3 1.0
CA C:ASP145 4.9 21.5 1.0
O C:ASP145 4.9 20.0 1.0

Fluorine binding site 8 out of 8 in 7wl4

Go back to Fluorine Binding Sites List in 7wl4
Fluorine binding site 8 out of 8 in the Crystal Structure of the First Bromodomain of Human BRD4 in Complex with the Inhibitor Slp-50


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 the First Bromodomain of Human BRD4 in Complex with the Inhibitor Slp-50 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:F201

b:20.9
occ:1.00
FAZ D:JFU201 0.0 20.9 1.0
CAV D:JFU201 1.3 18.9 1.0
CAU D:JFU201 2.3 19.0 1.0
CAW D:JFU201 2.4 19.3 1.0
CAU C:JFU201 3.4 24.6 1.0
CAV C:JFU201 3.4 21.8 1.0
FAZ C:JFU201 3.4 27.6 1.0
N D:ILE146 3.5 19.1 1.0
CB D:ASP145 3.6 23.8 1.0
CAT D:JFU201 3.6 20.0 1.0
CAX D:JFU201 3.6 19.4 1.0
CA D:ILE146 3.7 19.5 1.0
SD D:MET149 3.7 23.5 1.0
CB D:ILE146 3.8 21.1 1.0
C D:ASP145 3.9 20.2 1.0
O C:HOH308 4.0 23.8 1.0
CAW C:JFU201 4.1 20.9 1.0
CAS D:JFU201 4.1 20.0 1.0
CAT C:JFU201 4.1 24.6 1.0
CD1 D:ILE146 4.1 24.0 1.0
OD2 C:ASP145 4.4 26.1 1.0
CA D:ASP145 4.4 21.3 1.0
O D:ASP145 4.5 19.2 1.0
CG1 D:ILE146 4.6 23.0 1.0
FAY C:JFU201 4.7 33.8 1.0
FAY D:JFU201 4.7 20.5 1.0
CAX C:JFU201 4.7 22.1 1.0
CAS C:JFU201 4.7 23.5 1.0
CG D:ASP145 4.8 27.6 1.0
CB C:ASP145 4.9 22.6 1.0
CG D:MET149 4.9 20.9 1.0

Reference:

W.Li, C.Zhang, H.E.Zhang, R.Dong, J.Y.Liu, C.M.Wang, M.Wang, Y.W.Wang, C.Wang, Y.Zhang, L.Shi, Y.Xu, L.P.Sun. Design, Synthesis, and Anticancer Evaluation of Ammosamide B with Pyrroloquinoline Derivatives As Novel BRD4 Inhibitors. Bioorg.Chem. V. 127 05917 2022.
ISSN: ISSN 0045-2068
PubMed: 35738217
DOI: 10.1016/J.BIOORG.2022.105917
Page generated: Fri Aug 2 14:50:25 2024

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