Fluorine in PDB 8cqb: Cryo-Em Structure of the Human GBP1 Dimer Bound to Gdp-ALF3

The structure of Cryo-Em Structure of the Human GBP1 Dimer Bound to Gdp-ALF3 also contains other interesting chemical elements:

Aluminium	(Al)	2 atoms
Magnesium	(Mg)	2 atoms

The binding sites of Fluorine atom in the Cryo-Em Structure of the Human GBP1 Dimer Bound to Gdp-ALF3 (pdb code 8cqb). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total 6 binding sites of Fluorine where determined in the Cryo-Em Structure of the Human GBP1 Dimer Bound to Gdp-ALF3, PDB code: 8cqb:
Jump to Fluorine binding site number: 1; 2; 3; 4; 5; 6;

Fluorine binding site 1 out of 6 in the Cryo-Em Structure of the Human GBP1 Dimer Bound to Gdp-ALF3


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 1 of Cryo-Em Structure of the Human GBP1 Dimer Bound to Gdp-ALF3 within 5.0Å range: probe atom residue distance (Å) B Occ A:F602 b:59.4 occ:1.00 F1 A:AF3602 0.0 59.4 1.0 AL A:AF3602 1.7 67.9 1.0 CB A:THR75 2.4 35.6 1.0 O2B A:GDP601 2.4 31.3 1.0 MG A:MG603 2.5 26.8 1.0 O1B A:GDP601 2.6 31.3 1.0 PB A:GDP601 2.7 31.3 1.0 F2 A:AF3602 2.9 56.5 1.0 F3 A:AF3602 2.9 63.7 1.0 O A:THR75 3.0 35.6 1.0 OG1 A:THR75 3.1 35.6 1.0 N A:THR75 3.1 35.6 1.0 CA A:THR75 3.1 35.6 1.0 O3B A:GDP601 3.2 31.3 1.0 CG2 A:THR75 3.4 35.6 1.0 C A:THR75 3.5 35.6 1.0 N A:GLY100 4.0 31.6 1.0 O3A A:GDP601 4.2 31.3 1.0 C A:HIS74 4.3 34.3 1.0 CA A:GLU99 4.4 37.7 1.0 O A:THR98 4.4 23.4 1.0 O1A A:GDP601 4.5 31.3 1.0 N A:HIS74 4.6 34.3 1.0 C A:GLU99 4.7 37.7 1.0 OG A:SER52 4.8 25.4 1.0 N A:LYS76 4.8 42.0 1.0 CA A:GLY100 4.9 31.6 1.0 CA A:HIS74 5.0 34.3 1.0

Fluorine binding site 2 out of 6 in the Cryo-Em Structure of the Human GBP1 Dimer Bound to Gdp-ALF3


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 2 of Cryo-Em Structure of the Human GBP1 Dimer Bound to Gdp-ALF3 within 5.0Å range: probe atom residue distance (Å) B Occ A:F602 b:56.5 occ:1.00 F2 A:AF3602 0.0 56.5 1.0 AL A:AF3602 1.7 67.9 1.0 O1B A:GDP601 1.9 31.3 1.0 N A:GLY100 2.2 31.6 1.0 CA A:GLY100 2.3 31.6 1.0 F3 A:AF3602 2.9 63.7 1.0 F1 A:AF3602 2.9 59.4 1.0 PB A:GDP601 3.3 31.3 1.0 NZ A:LYS51 3.4 21.7 1.0 C A:GLU99 3.4 37.7 1.0 CE A:LYS51 3.5 21.7 1.0 C A:GLY100 3.6 31.6 1.0 CA A:TYR47 3.7 25.7 1.0 CB A:TYR47 3.8 25.7 1.0 O3B A:GDP601 3.9 31.3 1.0 O2B A:GDP601 4.0 31.3 1.0 CA A:GLU99 4.1 37.7 1.0 O A:THR98 4.1 23.4 1.0 O A:GLY100 4.2 31.6 1.0 N A:ARG48 4.3 28.9 1.0 O A:GLU99 4.3 37.7 1.0 O3A A:GDP601 4.3 31.3 1.0 C A:TYR47 4.5 25.7 1.0 N A:LEU101 4.6 29.6 1.0 N A:TYR47 4.6 25.7 1.0 MG A:MG603 4.6 26.8 1.0 O A:LEU46 4.7 25.8 1.0 O A:THR75 4.8 35.6 1.0 C A:LEU46 4.9 25.8 1.0 CD A:LYS51 5.0 21.7 1.0

Fluorine binding site 3 out of 6 in the Cryo-Em Structure of the Human GBP1 Dimer Bound to Gdp-ALF3


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 3 of Cryo-Em Structure of the Human GBP1 Dimer Bound to Gdp-ALF3 within 5.0Å range: probe atom residue distance (Å) B Occ A:F602 b:63.7 occ:1.00 F3 A:AF3602 0.0 63.7 1.0 AL A:AF3602 1.7 67.9 1.0 F2 A:AF3602 2.9 56.5 1.0 F1 A:AF3602 2.9 59.4 1.0 O3B A:GDP601 3.1 31.3 1.0 O1B A:GDP601 3.1 31.3 1.0 CB A:SER73 3.2 34.1 1.0 CA A:SER73 3.4 34.1 1.0 PB A:GDP601 3.6 31.3 1.0 N A:HIS74 3.7 34.3 1.0 CB A:TYR47 3.9 25.7 1.0 C A:SER73 4.0 34.1 1.0 O A:THR75 4.1 35.6 1.0 N A:GLY100 4.1 31.6 1.0 N A:ARG48 4.2 28.9 1.0 NE A:ARG48 4.2 28.9 1.0 CD2 A:TYR47 4.3 25.7 1.0 OG A:SER73 4.4 34.1 1.0 O2B A:GDP601 4.4 31.3 1.0 N A:THR75 4.4 35.6 1.0 CA A:TYR47 4.4 25.7 1.0 CA A:GLY100 4.5 31.6 1.0 CG A:TYR47 4.6 25.7 1.0 N A:SER73 4.7 34.1 1.0 CG A:ARG48 4.7 28.9 1.0 C A:TYR47 4.8 25.7 1.0 OD1 A:ASP103 4.8 36.4 1.0 CD A:ARG48 4.8 28.9 1.0 OD2 A:ASP103 4.9 36.4 1.0 CA A:HIS74 4.9 34.3 1.0 O3A A:GDP601 4.9 31.3 1.0 C A:THR75 5.0 35.6 1.0 C A:HIS74 5.0 34.3 1.0

Fluorine binding site 4 out of 6 in the Cryo-Em Structure of the Human GBP1 Dimer Bound to Gdp-ALF3


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 4 of Cryo-Em Structure of the Human GBP1 Dimer Bound to Gdp-ALF3 within 5.0Å range: probe atom residue distance (Å) B Occ B:F602 b:53.2 occ:1.00 F1 B:AF3602 0.0 53.2 1.0 AL B:AF3602 1.7 66.4 1.0 O1B B:GDP601 2.4 28.5 1.0 N B:GLY100 2.6 30.5 1.0 NZ B:LYS51 2.8 22.7 1.0 F2 B:AF3602 2.9 53.6 1.0 F3 B:AF3602 2.9 52.6 1.0 CA B:GLY100 2.9 30.5 1.0 O3B B:GDP601 2.9 28.5 1.0 PB B:GDP601 3.1 28.5 1.0 O2B B:GDP601 3.4 28.5 1.0 CE B:LYS51 3.5 22.7 1.0 C B:GLU99 3.7 33.2 1.0 O B:THR98 3.7 25.6 1.0 CA B:GLU99 4.2 33.2 1.0 CA B:TYR47 4.3 28.5 1.0 MG B:MG603 4.4 25.9 1.0 C B:GLY100 4.4 30.5 1.0 N B:ARG48 4.5 27.8 1.0 O B:THR75 4.6 36.8 1.0 O3A B:GDP601 4.6 28.5 1.0 O B:GLU99 4.6 33.2 1.0 CB B:THR75 4.6 36.8 1.0 CB B:TYR47 4.6 28.5 1.0 O B:LEU46 4.7 25.9 1.0 C B:THR98 4.7 25.6 1.0 CD B:LYS51 4.9 22.7 1.0 N B:GLU99 4.9 33.2 1.0 O B:GLY100 5.0 30.5 1.0 C B:TYR47 5.0 28.5 1.0

Fluorine binding site 5 out of 6 in the Cryo-Em Structure of the Human GBP1 Dimer Bound to Gdp-ALF3


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 5 of Cryo-Em Structure of the Human GBP1 Dimer Bound to Gdp-ALF3 within 5.0Å range: probe atom residue distance (Å) B Occ B:F602 b:53.6 occ:1.00 F2 B:AF3602 0.0 53.6 1.0 AL B:AF3602 1.7 66.4 1.0 O2B B:GDP601 2.0 28.5 1.0 MG B:MG603 2.2 25.9 1.0 O3B B:GDP601 2.4 28.5 1.0 CB B:THR75 2.5 36.8 1.0 PB B:GDP601 2.6 28.5 1.0 F1 B:AF3602 2.9 53.2 1.0 F3 B:AF3602 2.9 52.6 1.0 N B:THR75 2.9 36.8 1.0 OG1 B:THR75 2.9 36.8 1.0 CA B:THR75 3.3 36.8 1.0 O1B B:GDP601 3.4 28.5 1.0 CG2 B:THR75 3.7 36.8 1.0 O B:THR75 3.9 36.8 1.0 OG B:SER52 4.0 29.5 1.0 O3A B:GDP601 4.0 28.5 1.0 C B:THR75 4.1 36.8 1.0 C B:HIS74 4.1 38.3 1.0 O1A B:GDP601 4.2 28.5 1.0 N B:HIS74 4.3 38.3 1.0 NH2 B:ARG48 4.5 27.8 1.0 CA B:HIS74 4.5 38.3 1.0 CB B:HIS74 4.6 38.3 1.0 PA B:GDP601 4.6 28.5 1.0 O B:THR98 4.7 25.6 1.0 O2A B:GDP601 4.8 28.5 1.0 OD2 B:ASP97 4.9 37.1 1.0 N B:GLY100 5.0 30.5 1.0

Fluorine binding site 6 out of 6 in the Cryo-Em Structure of the Human GBP1 Dimer Bound to Gdp-ALF3


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 6 of Cryo-Em Structure of the Human GBP1 Dimer Bound to Gdp-ALF3 within 5.0Å range: probe atom residue distance (Å) B Occ B:F602 b:52.6 occ:1.00 F3 B:AF3602 0.0 52.6 1.0 AL B:AF3602 1.7 66.4 1.0 O3B B:GDP601 1.9 28.5 1.0 F1 B:AF3602 2.9 53.2 1.0 F2 B:AF3602 2.9 53.6 1.0 PB B:GDP601 3.3 28.5 1.0 N B:HIS74 3.3 38.3 1.0 NE B:ARG48 3.4 27.8 1.0 CA B:SER73 3.5 37.4 1.0 NH2 B:ARG48 3.6 27.8 1.0 CB B:SER73 3.7 37.4 1.0 O1B B:GDP601 3.8 28.5 1.0 N B:ARG48 3.8 27.8 1.0 C B:SER73 3.9 37.4 1.0 O1A B:GDP601 4.0 28.5 1.0 CZ B:ARG48 4.0 27.8 1.0 O2B B:GDP601 4.0 28.5 1.0 N B:THR75 4.2 36.8 1.0 CA B:HIS74 4.4 38.3 1.0 CD B:ARG48 4.4 27.8 1.0 O3A B:GDP601 4.4 28.5 1.0 CB B:TYR47 4.5 28.5 1.0 CA B:ARG48 4.6 27.8 1.0 CG B:ARG48 4.6 27.8 1.0 CA B:TYR47 4.6 28.5 1.0 N B:SER73 4.7 37.4 1.0 C B:TYR47 4.7 28.5 1.0 CB B:HIS74 4.7 38.3 1.0 O B:GLN72 4.8 43.4 1.0 O B:THR75 4.8 36.8 1.0 C B:HIS74 4.8 38.3 1.0 N B:GLY100 4.8 30.5 1.0 PA B:GDP601 4.9 28.5 1.0 OG B:SER73 4.9 37.4 1.0

T.I.Kuhm, C.De Agrela Pinto, C.Taisne, S.Huber, N.Giannopolou, E.Pardon, J.Steyaert, A.J.Jakobi. Cryo-Em Structure of the Human GBP1 Dimer Bound to Gdp-ALF3 To Be Published.