Fluorine in PDB 5ywy: Crystal Structure of the Human Prostaglandin E Receptor EP4 in Complex with Fab and Ono-AE3-208

The structure of Crystal Structure of the Human Prostaglandin E Receptor EP4 in Complex with Fab and Ono-AE3-208, PDB code: 5ywy was solved by Y.Toyoda, K.Morimoto, R.Suno, S.Horita, S.Iwata, T.Kobayashi, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.88 / 3.20
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	100.980, 390.150, 79.360, 90.00, 90.00, 90.00
R / Rfree (%)	22.2 / 25.2

The binding sites of Fluorine atom in the Crystal Structure of the Human Prostaglandin E Receptor EP4 in Complex with Fab and Ono-AE3-208 (pdb code 5ywy). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total only one binding site of Fluorine was determined in the Crystal Structure of the Human Prostaglandin E Receptor EP4 in Complex with Fab and Ono-AE3-208, PDB code: 5ywy:

Fluorine binding site 1 out of 1 in the Crystal Structure of the Human Prostaglandin E Receptor EP4 in Complex with Fab and Ono-AE3-208


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 Prostaglandin E Receptor EP4 in Complex with Fab and Ono-AE3-208 within 5.0Å range: probe atom residue distance (Å) B Occ A:F501 b:0.8 occ:1.00 F01 A:7UR501 0.0 0.8 1.0 C02 A:7UR501 1.4 0.0 1.0 C03 A:7UR501 2.4 0.8 1.0 C30 A:7UR501 2.4 0.9 1.0 C29 A:7UR501 2.8 99.1 1.0 CG2 A:VAL320 3.2 0.6 1.0 C25 A:7UR501 3.7 0.1 1.0 C04 A:7UR501 3.7 0.8 1.0 CB A:ARG316 3.7 87.0 1.0 O A:ARG316 3.8 94.9 1.0 C A:ARG316 4.0 98.3 1.0 C05 A:7UR501 4.1 0.0 1.0 C28 A:7UR501 4.2 85.5 1.0 CA A:ARG316 4.3 91.1 1.0 CG A:ARG316 4.4 82.4 1.0 N A:ILE317 4.7 0.7 1.0 CD A:ARG316 4.7 82.8 1.0 CB A:VAL320 4.7 89.9 1.0 C26 A:7UR501 4.8 97.1 1.0 CE A:MET27 4.9 0.3 1.0

Y.Toyoda, K.Morimoto, R.Suno, S.Horita, K.Yamashita, K.Hirata, Y.Sekiguchi, S.Yasuda, M.Shiroishi, T.Shimizu, Y.Urushibata, Y.Kajiwara, T.Inazumi, Y.Hotta, H.Asada, T.Nakane, Y.Shiimura, T.Nakagita, K.Tsuge, S.Yoshida, T.Kuribara, T.Hosoya, Y.Sugimoto, N.Nomura, M.Sato, T.Hirokawa, M.Kinoshita, T.Murata, K.Takayama, M.Yamamoto, S.Narumiya, S.Iwata, T.Kobayashi. Ligand Binding to Human Prostaglandin E Receptor EP4AT the Lipid-Bilayer Interface. Nat. Chem. Biol. V. 15 18 2019.
ISSN: ESSN 1552-4469
PubMed: 30510193
DOI: 10.1038/S41589-018-0131-3