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Fluorine in PDB 5zkq: Crystal Structure of the Human Platelet-Activating Factor Receptor in Complex with Abt-491

Enzymatic activity of Crystal Structure of the Human Platelet-Activating Factor Receptor in Complex with Abt-491

All present enzymatic activity of Crystal Structure of the Human Platelet-Activating Factor Receptor in Complex with Abt-491:
3.2.1.17;

Protein crystallography data

The structure of Crystal Structure of the Human Platelet-Activating Factor Receptor in Complex with Abt-491, PDB code: 5zkq was solved by C.Cao, Q.Zhao, X.C.Zhang, B.Wu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 49.39 / 2.90
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 86.220, 166.540, 100.310, 90.00, 100.00, 90.00
R / Rfree (%) 20.3 / 23.5

Other elements in 5zkq:

The structure of Crystal Structure of the Human Platelet-Activating Factor Receptor in Complex with Abt-491 also contains other interesting chemical elements:

Zinc (Zn) 2 atoms

Fluorine Binding Sites:

The binding sites of Fluorine atom in the Crystal Structure of the Human Platelet-Activating Factor Receptor in Complex with Abt-491 (pdb code 5zkq). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total 2 binding sites of Fluorine where determined in the Crystal Structure of the Human Platelet-Activating Factor Receptor in Complex with Abt-491, PDB code: 5zkq:
Jump to Fluorine binding site number: 1; 2;

Fluorine binding site 1 out of 2 in 5zkq

Go back to Fluorine Binding Sites List in 5zkq
Fluorine binding site 1 out of 2 in the Crystal Structure of the Human Platelet-Activating Factor Receptor in Complex with Abt-491


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 Human Platelet-Activating Factor Receptor in Complex with Abt-491 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F501

b:80.6
occ:1.00
FAG A:9EU501 0.0 80.6 1.0
CAY A:9EU501 1.3 81.4 1.0
CBB A:9EU501 2.3 81.4 1.0
CAQ A:9EU501 2.3 83.3 1.0
CAS A:9EU501 2.7 82.1 1.0
CA A:GLY94 3.1 72.3 1.0
CD2 A:PHE174 3.3 72.8 1.0
CB A:PHE174 3.6 71.4 1.0
CAM A:9EU501 3.6 82.2 1.0
CAZ A:9EU501 3.6 86.2 1.0
CG A:PHE174 3.7 71.5 1.0
NBJ A:9EU501 4.0 81.8 1.0
CAL A:9EU501 4.1 84.0 1.0
N A:GLY94 4.1 73.0 1.0
CAO A:9EU501 4.2 79.1 1.0
CD2 A:PHE97 4.2 72.7 1.0
C A:GLY94 4.2 74.5 1.0
CE2 A:PHE174 4.2 75.7 1.0
O A:GLY94 4.3 74.4 1.0
CBE A:9EU501 4.4 80.5 1.0
CZ2 A:TRP73 4.5 79.3 1.0
CE2 A:PHE152 4.7 72.0 1.0
CD1 A:PHE174 4.7 72.8 1.0
CE2 A:PHE97 4.8 75.5 1.0
CAV A:9EU501 4.8 90.2 1.0
CH2 A:TRP73 4.8 79.6 1.0
C A:ALA93 4.9 76.5 1.0
CD2 A:PHE152 4.9 69.3 1.0
CG A:PHE97 5.0 69.1 1.0

Fluorine binding site 2 out of 2 in 5zkq

Go back to Fluorine Binding Sites List in 5zkq
Fluorine binding site 2 out of 2 in the Crystal Structure of the Human Platelet-Activating Factor Receptor in Complex with Abt-491


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 Human Platelet-Activating Factor Receptor in Complex with Abt-491 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:F1201

b:73.4
occ:1.00
FAG B:9EU1201 0.0 73.4 1.0
CAY B:9EU1201 1.3 75.8 1.0
CBB B:9EU1201 2.3 75.4 1.0
CAQ B:9EU1201 2.3 79.8 1.0
CAS B:9EU1201 2.7 72.6 1.0
CA B:GLY94 3.3 65.6 1.0
CD2 B:PHE174 3.5 69.4 1.0
CAM B:9EU1201 3.6 78.8 1.0
CB B:PHE174 3.6 69.0 1.0
CAZ B:9EU1201 3.6 84.2 1.0
CG B:PHE174 3.8 68.9 1.0
NBJ B:9EU1201 4.0 71.7 1.0
CD2 B:PHE97 4.0 64.1 1.0
CAL B:9EU1201 4.1 80.7 1.0
O B:GLY94 4.1 72.4 1.0
C B:GLY94 4.2 71.0 1.0
CAO B:9EU1201 4.3 70.7 1.0
N B:GLY94 4.4 65.8 1.0
CE2 B:PHE174 4.4 71.5 1.0
CBE B:9EU1201 4.5 72.2 1.0
CZ2 B:TRP73 4.6 66.0 1.0
CE2 B:PHE97 4.7 66.9 1.0
CB B:PHE97 4.8 60.0 1.0
CG B:PHE97 4.8 61.2 1.0
CD1 B:PHE174 4.8 70.2 1.0
CE2 B:PHE152 4.8 73.5 1.0
CAV B:9EU1201 4.8 90.5 1.0
CH2 B:TRP73 4.8 66.5 1.0

Reference:

C.Cao, Q.Tan, C.Xu, L.He, L.Yang, Y.Zhou, Y.Zhou, A.Qiao, M.Lu, C.Yi, G.W.Han, X.Wang, X.Li, H.Yang, Z.Rao, H.Jiang, Y.Zhao, J.Liu, R.C.Stevens, Q.Zhao, X.C.Zhang, B.Wu. Structural Basis For Signal Recognition and Transduction By Platelet-Activating-Factor Receptor. Nat. Struct. Mol. Biol. V. 25 488 2018.
ISSN: ESSN 1545-9985
PubMed: 29808000
DOI: 10.1038/S41594-018-0068-Y
Page generated: Tue Jul 15 09:37:48 2025

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