Fluorine in PDB 8op7: Cryo-Em Structure of P5A-Atpase CTSPF1 ( E2P State with Endogenous Cargo Bound)

The structure of Cryo-Em Structure of P5A-Atpase CTSPF1 ( E2P State with Endogenous Cargo Bound) also contains other interesting chemical elements:

Magnesium

(Mg)

1 atom

The binding sites of Fluorine atom in the Cryo-Em Structure of P5A-Atpase CTSPF1 ( E2P State with Endogenous Cargo Bound) (pdb code 8op7). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total 3 binding sites of Fluorine where determined in the Cryo-Em Structure of P5A-Atpase CTSPF1 ( E2P State with Endogenous Cargo Bound), PDB code: 8op7:
Jump to Fluorine binding site number: 1; 2; 3;

Fluorine binding site 1 out of 3 in the Cryo-Em Structure of P5A-Atpase CTSPF1 ( E2P State with Endogenous Cargo Bound)


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 P5A-Atpase CTSPF1 ( E2P State with Endogenous Cargo Bound) within 5.0Å range: probe atom residue distance (Å) B Occ A:F1401 b:84.0 occ:1.00 F1 A:BEF1401 0.0 84.0 1.0 BE A:BEF1401 1.5 84.0 1.0 MG A:MG1402 2.0 89.6 1.0 O A:THR501 2.2 82.6 1.0 OG1 A:THR501 2.3 82.6 1.0 F2 A:BEF1401 2.5 84.0 1.0 F3 A:BEF1401 2.5 84.0 1.0 OD1 A:ASP499 2.9 83.3 1.0 OD2 A:ASP499 3.0 83.3 1.0 CG A:ASP499 3.0 83.3 1.0 C A:THR501 3.1 82.6 1.0 N A:THR501 3.2 82.6 1.0 CB A:THR501 3.3 82.6 1.0 CA A:THR501 3.4 82.6 1.0 OD1 A:ASP859 3.5 86.5 1.0 OD2 A:ASP859 4.0 86.5 1.0 CG A:ASP859 4.1 86.5 1.0 CB A:ASP499 4.1 83.3 1.0 N A:LYS500 4.2 85.7 1.0 C A:LYS500 4.3 85.7 1.0 N A:GLY502 4.4 82.2 1.0 CG2 A:THR501 4.6 82.6 1.0 CA A:LYS500 4.8 85.7 1.0 O A:GLY314 4.9 97.0 1.0

Fluorine binding site 2 out of 3 in the Cryo-Em Structure of P5A-Atpase CTSPF1 ( E2P State with Endogenous Cargo Bound)


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 P5A-Atpase CTSPF1 ( E2P State with Endogenous Cargo Bound) within 5.0Å range: probe atom residue distance (Å) B Occ A:F1401 b:84.0 occ:1.00 F2 A:BEF1401 0.0 84.0 1.0 BE A:BEF1401 1.5 84.0 1.0 MG A:MG1402 2.0 89.6 1.0 OD2 A:ASP499 2.2 83.3 1.0 F1 A:BEF1401 2.5 84.0 1.0 F3 A:BEF1401 2.5 84.0 1.0 OD1 A:ASN862 2.7 86.4 1.0 CG A:ASP499 3.1 83.3 1.0 OD1 A:ASP859 3.2 86.5 1.0 ND2 A:ASN862 3.3 86.4 1.0 CG A:ASN862 3.3 86.4 1.0 OD1 A:ASP499 3.4 83.3 1.0 OD2 A:ASP863 3.9 85.8 1.0 NZ A:LYS840 4.2 83.1 1.0 CG A:ASP863 4.2 85.8 1.0 O A:THR501 4.3 82.6 1.0 CG A:ASP859 4.3 86.5 1.0 OD1 A:ASP863 4.5 85.8 1.0 OG1 A:THR501 4.5 82.6 1.0 CB A:ASP499 4.5 83.3 1.0 OD2 A:ASP859 4.7 86.5 1.0 N A:GLY860 4.7 87.3 1.0 CA A:GLY314 4.8 97.0 1.0 CB A:ASN862 4.8 86.4 1.0 CB A:ASP863 4.9 85.8 1.0

Fluorine binding site 3 out of 3 in the Cryo-Em Structure of P5A-Atpase CTSPF1 ( E2P State with Endogenous Cargo Bound)


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 P5A-Atpase CTSPF1 ( E2P State with Endogenous Cargo Bound) within 5.0Å range: probe atom residue distance (Å) B Occ A:F1401 b:84.0 occ:1.00 F3 A:BEF1401 0.0 84.0 1.0 BE A:BEF1401 1.5 84.0 1.0 OD1 A:ASP499 2.3 83.3 1.0 F1 A:BEF1401 2.5 84.0 1.0 F2 A:BEF1401 2.5 84.0 1.0 CG A:ASP499 3.1 83.3 1.0 OD2 A:ASP499 3.2 83.3 1.0 OG1 A:THR501 3.6 82.6 1.0 N A:GLY741 3.6 78.3 1.0 ND2 A:ASN862 3.7 86.4 1.0 MG A:MG1402 3.7 89.6 1.0 NZ A:LYS840 3.9 83.1 1.0 OG1 A:THR740 3.9 81.7 1.0 CA A:THR740 4.1 81.7 1.0 C A:THR740 4.2 81.7 1.0 CA A:GLY741 4.5 78.3 1.0 N A:LYS500 4.5 85.7 1.0 N A:THR501 4.5 82.6 1.0 OD1 A:ASN862 4.5 86.4 1.0 CB A:ASP499 4.5 83.3 1.0 CG A:ASN862 4.6 86.4 1.0 CB A:THR740 4.6 81.7 1.0 O A:THR501 4.7 82.6 1.0 O A:ILE739 4.8 81.2 1.0 CA A:GLY314 4.8 97.0 1.0 CB A:THR501 4.9 82.6 1.0 O A:SER313 5.0 96.7 1.0

P.Li, P.Gourdon. Cryo-Em Structural Insights Into P5A-Atpase CTSPF1 To Be Published.