Fluorine in PDB 6kjv: Structure of Thermal-Stabilised(M9) Human Glp-1 Receptor Transmembrane Domain

The structure of Structure of Thermal-Stabilised(M9) Human Glp-1 Receptor Transmembrane Domain, PDB code: 6kjv was solved by G.J.Song, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.80 / 2.80
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	65.030, 68.300, 83.430, 91.53, 90.34, 106.49
R / Rfree (%)	24.7 / 28

The binding sites of Fluorine atom in the Structure of Thermal-Stabilised(M9) Human Glp-1 Receptor Transmembrane Domain (pdb code 6kjv). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total 6 binding sites of Fluorine where determined in the Structure of Thermal-Stabilised(M9) Human Glp-1 Receptor Transmembrane Domain, PDB code: 6kjv:
Jump to Fluorine binding site number: 1; 2; 3; 4; 5; 6;

Fluorine binding site 1 out of 6 in the Structure of Thermal-Stabilised(M9) Human Glp-1 Receptor Transmembrane Domain


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 1 of Structure of Thermal-Stabilised(M9) Human Glp-1 Receptor Transmembrane Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:F2001 b:92.4 occ:1.00 F01 A:97Y2001 0.0 92.4 1.0 C21 A:97Y2001 1.4 75.9 1.0 F03 A:97Y2001 2.2 81.1 1.0 F02 A:97Y2001 2.2 71.5 1.0 C18 A:97Y2001 2.4 61.3 1.0 N09 A:97Y2001 2.9 56.4 1.0 CG1 A:VAL331 3.3 57.4 1.0 C22 A:97Y2001 3.6 54.4 1.0 CD1 A:LEU335 3.8 64.8 1.0 CE1 A:PHE347 3.9 58.8 1.0 CG1 A:VAL332 4.1 62.6 1.0 C23 A:97Y2001 4.1 53.6 1.0 CB A:VAL331 4.2 50.3 1.0 N07 A:97Y2001 4.4 48.4 1.0 CD1 A:PHE347 4.6 51.0 1.0 N A:VAL332 4.7 64.8 1.0 CZ A:PHE347 4.8 60.1 1.0 C A:VAL331 4.9 57.0 1.0 CG2 B:ILE286 4.9 56.9 1.0

Fluorine binding site 2 out of 6 in the Structure of Thermal-Stabilised(M9) Human Glp-1 Receptor Transmembrane Domain


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 2 of Structure of Thermal-Stabilised(M9) Human Glp-1 Receptor Transmembrane Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:F2001 b:71.5 occ:1.00 F02 A:97Y2001 0.0 71.5 1.0 C21 A:97Y2001 1.4 75.9 1.0 F03 A:97Y2001 2.2 81.1 1.0 F01 A:97Y2001 2.2 92.4 1.0 C18 A:97Y2001 2.4 61.3 1.0 N09 A:97Y2001 3.2 56.4 1.0 CD1 B:ILE286 3.3 58.3 1.0 C22 A:97Y2001 3.3 54.4 1.0 CG2 B:ILE286 3.5 56.9 1.0 CG1 A:VAL332 3.9 62.6 1.0 O23 A:OLC2002 4.0 59.4 1.0 CG1 B:ILE286 4.1 63.7 1.0 C23 A:97Y2001 4.2 53.6 1.0 CB B:ILE286 4.3 59.4 1.0 N07 A:97Y2001 4.3 48.4 1.0 CG2 A:ILE328 4.8 50.3 1.0 C22 A:OLC2002 4.9 67.9 1.0

Fluorine binding site 3 out of 6 in the Structure of Thermal-Stabilised(M9) Human Glp-1 Receptor Transmembrane Domain


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 3 of Structure of Thermal-Stabilised(M9) Human Glp-1 Receptor Transmembrane Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:F2001 b:81.1 occ:1.00 F03 A:97Y2001 0.0 81.1 1.0 C21 A:97Y2001 1.4 75.9 1.0 F02 A:97Y2001 2.2 71.5 1.0 F01 A:97Y2001 2.2 92.4 1.0 C18 A:97Y2001 2.4 61.3 1.0 C22 A:97Y2001 2.8 54.4 1.0 N09 A:97Y2001 3.6 56.4 1.0 CD1 A:LEU354 3.7 56.9 1.0 N07 A:97Y2001 4.1 48.4 1.0 CG1 A:VAL331 4.2 57.4 1.0 C23 A:97Y2001 4.4 53.6 1.0 O23 A:OLC2002 4.5 59.4 1.0 CB A:VAL331 4.5 50.3 1.0 CG2 A:ILE328 4.6 50.3 1.0 CG1 A:ILE328 4.7 58.1 1.0 CG1 A:VAL332 4.7 62.6 1.0 C22 A:OLC2002 4.8 67.9 1.0 CD1 B:ILE286 4.9 58.3 1.0 CA A:ILE328 4.9 53.7 1.0 CB A:ILE328 5.0 49.5 1.0

Fluorine binding site 4 out of 6 in the Structure of Thermal-Stabilised(M9) Human Glp-1 Receptor Transmembrane Domain


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 4 of Structure of Thermal-Stabilised(M9) Human Glp-1 Receptor Transmembrane Domain within 5.0Å range: probe atom residue distance (Å) B Occ B:F2001 b:81.4 occ:1.00 F01 B:97Y2001 0.0 81.4 1.0 C21 B:97Y2001 1.4 73.5 1.0 F03 B:97Y2001 2.2 81.0 1.0 F02 B:97Y2001 2.2 75.1 1.0 C18 B:97Y2001 2.4 67.2 1.0 N09 B:97Y2001 2.9 72.6 1.0 CG1 B:VAL331 3.2 63.6 1.0 C22 B:97Y2001 3.6 60.1 1.0 CG1 B:VAL332 3.7 51.1 1.0 CD1 B:LEU335 3.8 53.8 1.0 CB B:VAL331 4.0 60.5 1.0 C23 B:97Y2001 4.1 66.3 1.0 CE1 B:PHE347 4.1 51.1 1.0 N B:VAL332 4.4 61.6 1.0 N07 B:97Y2001 4.5 56.7 1.0 C B:VAL331 4.7 64.5 1.0 CA B:VAL332 4.7 55.7 1.0 CB B:VAL332 4.8 55.7 1.0 CD1 B:PHE347 4.9 52.0 1.0

Fluorine binding site 5 out of 6 in the Structure of Thermal-Stabilised(M9) Human Glp-1 Receptor Transmembrane Domain


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 5 of Structure of Thermal-Stabilised(M9) Human Glp-1 Receptor Transmembrane Domain within 5.0Å range: probe atom residue distance (Å) B Occ B:F2001 b:75.1 occ:1.00 F02 B:97Y2001 0.0 75.1 1.0 C21 B:97Y2001 1.4 73.5 1.0 F03 B:97Y2001 2.2 81.0 1.0 F01 B:97Y2001 2.2 81.4 1.0 C18 B:97Y2001 2.4 67.2 1.0 C22 B:97Y2001 3.3 60.1 1.0 N09 B:97Y2001 3.3 72.6 1.0 CG1 B:VAL332 3.7 51.1 1.0 C23 B:97Y2001 4.3 66.3 1.0 N07 B:97Y2001 4.3 56.7 1.0 O23 B:OLC2002 4.5 58.5 1.0 CG2 B:ILE328 4.5 48.0 1.0

Fluorine binding site 6 out of 6 in the Structure of Thermal-Stabilised(M9) Human Glp-1 Receptor Transmembrane Domain


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 6 of Structure of Thermal-Stabilised(M9) Human Glp-1 Receptor Transmembrane Domain within 5.0Å range: probe atom residue distance (Å) B Occ B:F2001 b:81.0 occ:1.00 F03 B:97Y2001 0.0 81.0 1.0 C21 B:97Y2001 1.4 73.5 1.0 F02 B:97Y2001 2.2 75.1 1.0 F01 B:97Y2001 2.2 81.4 1.0 C18 B:97Y2001 2.3 67.2 1.0 C22 B:97Y2001 2.8 60.1 1.0 N09 B:97Y2001 3.6 72.6 1.0 CG1 B:VAL331 3.8 63.6 1.0 CD1 B:LEU354 3.9 59.3 1.0 CB B:VAL331 4.0 60.5 1.0 N07 B:97Y2001 4.1 56.7 1.0 C23 B:97Y2001 4.4 66.3 1.0 CG1 B:VAL332 4.5 51.1 1.0 CG2 B:VAL331 4.6 57.2 1.0 CG1 B:ILE328 4.6 47.1 1.0 CG2 B:ILE328 4.6 48.0 1.0 CA B:ILE328 4.8 52.8 1.0 CB B:ILE328 4.9 46.6 1.0

Y.M.Xu, Y.X.Wang, Y.Wang, K.W.Liu, Y.Peng, D.Q.Yao, H.Tao, H.G.Liu, G.J.Song. Mutagenesis Facilitated Crystallization of Glp-1R Iucrj V. 6 996 2019.
ISSN: ESSN 2052-2525
DOI: 10.1107/S2052252519013496