Fluorine in PDB 8op8: Cryo-Em Structure of P5A-Atpase CTSPF1 (E2.Pi State with Endogenous Helix Cargo Bound)

Other elements in 8op8:

The structure of Cryo-Em Structure of P5A-Atpase CTSPF1 (E2.Pi State with Endogenous Helix Cargo Bound) also contains other interesting chemical elements:

Magnesium (Mg) 1 atom
Calcium (Ca) 1 atom
Aluminium (Al) 1 atom

Fluorine Binding Sites:

The binding sites of Fluorine atom in the Cryo-Em Structure of P5A-Atpase CTSPF1 (E2.Pi State with Endogenous Helix Cargo Bound) (pdb code 8op8). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total 4 binding sites of Fluorine where determined in the Cryo-Em Structure of P5A-Atpase CTSPF1 (E2.Pi State with Endogenous Helix Cargo Bound), PDB code: 8op8:
Jump to Fluorine binding site number: 1; 2; 3; 4;

Fluorine binding site 1 out of 4 in 8op8

Go back to Fluorine Binding Sites List in 8op8
Fluorine binding site 1 out of 4 in the Cryo-Em Structure of P5A-Atpase CTSPF1 (E2.Pi State with Endogenous Helix 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 (E2.Pi State with Endogenous Helix Cargo Bound) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F1401

b:96.6
occ:1.00
 F1 A:ALF1401 0.0 96.6 1.0
AL A:ALF1401 1.8 85.2 1.0
MG A:MG1402 2.0 98.3 1.0
OD2 A:ASP499 2.3 93.1 1.0
F4 A:ALF1401 2.5 104.2 1.0
F3 A:ALF1401 2.5 89.9 1.0
N A:THR501 2.9 97.7 1.0
CG A:ASP499 3.0 84.8 1.0
CB A:THR501 3.2 97.5 1.0
CA A:THR501 3.5 96.4 1.0
OD1 A:ASP499 3.5 86.6 1.0
N A:GLY502 3.5 67.3 1.0
F2 A:ALF1401 3.6 102.7 1.0
N A:LYS500 3.7 73.2 1.0
OG1 A:THR501 3.8 94.2 1.0
C A:LYS500 3.9 90.4 1.0
C A:THR501 4.0 93.4 1.0
CB A:ASP499 4.1 76.4 1.0
CA A:LYS500 4.3 78.5 1.0
CG2 A:THR501 4.3 99.3 1.0
OD1 A:ASP859 4.7 82.9 1.0
CA A:GLY502 4.7 79.7 1.0
C A:ASP499 4.7 72.4 1.0
CB A:LYS500 4.8 71.0 1.0
CA A:ASP499 4.8 61.9 1.0
O A:GLY314 4.9 105.9 1.0
OG1 A:THR740 5.0 101.5 1.0
O A:LYS500 5.0 98.9 1.0

Fluorine binding site 2 out of 4 in 8op8

Go back to Fluorine Binding Sites List in 8op8
Fluorine binding site 2 out of 4 in the Cryo-Em Structure of P5A-Atpase CTSPF1 (E2.Pi State with Endogenous Helix 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 (E2.Pi State with Endogenous Helix Cargo Bound) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F1401

b:102.7
occ:1.00
 F2 A:ALF1401 0.0 102.7 1.0
AL A:ALF1401 1.8 85.2 1.0
NZ A:LYS840 2.3 90.6 1.0
F3 A:ALF1401 2.5 89.9 1.0
F4 A:ALF1401 2.5 104.2 1.0
ND2 A:ASN862 2.6 93.5 1.0
CG A:ASN862 3.4 91.3 1.0
OD1 A:ASP499 3.5 86.6 1.0
F1 A:ALF1401 3.6 96.6 1.0
OD1 A:ASN862 3.6 93.2 1.0
O A:SER313 3.8 113.3 1.0
CE A:LYS840 3.8 89.7 1.0
OD2 A:ASP499 3.9 93.1 1.0
N A:GLY741 3.9 96.3 1.0
CG A:ASP499 4.1 84.8 1.0
MG A:MG1402 4.3 98.3 1.0
CA A:GLY314 4.3 110.0 1.0
CA A:GLY741 4.5 94.3 1.0
OD2 A:ASP863 4.6 84.8 1.0
CA A:THR740 4.7 78.9 1.0
C A:THR740 4.7 92.8 1.0
CB A:ASN862 4.7 89.2 1.0
C A:SER313 4.7 111.1 1.0
CD A:LYS840 4.8 87.2 1.0
N A:GLY314 5.0 111.0 1.0

Fluorine binding site 3 out of 4 in 8op8

Go back to Fluorine Binding Sites List in 8op8
Fluorine binding site 3 out of 4 in the Cryo-Em Structure of P5A-Atpase CTSPF1 (E2.Pi State with Endogenous Helix 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 (E2.Pi State with Endogenous Helix Cargo Bound) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F1401

b:89.9
occ:1.00
 F3 A:ALF1401 0.0 89.9 1.0
AL A:ALF1401 1.8 85.2 1.0
F2 A:ALF1401 2.5 102.7 1.0
F1 A:ALF1401 2.5 96.6 1.0
OG1 A:THR740 2.9 101.5 1.0
N A:GLY741 3.2 96.3 1.0
F4 A:ALF1401 3.6 104.2 1.0
CA A:THR740 3.6 78.9 1.0
CB A:THR740 3.7 97.4 1.0
OD1 A:ASP499 3.7 86.6 1.0
OD2 A:ASP499 3.9 93.1 1.0
C A:THR740 3.9 92.8 1.0
CG A:ASP499 4.0 84.8 1.0
CA A:GLY741 4.1 94.3 1.0
NZ A:LYS840 4.2 90.6 1.0
OG1 A:THR501 4.2 94.2 1.0
N A:THR501 4.2 97.7 1.0
MG A:MG1402 4.3 98.3 1.0
N A:LYS500 4.4 73.2 1.0
CB A:THR501 4.4 97.5 1.0
CB A:LYS500 4.6 71.0 1.0
O A:SER313 4.6 113.3 1.0
C A:GLY741 4.6 88.9 1.0
N A:ASP742 4.6 92.7 1.0
OE2 A:GLU315 4.8 115.3 1.0
O A:ILE739 4.8 97.0 1.0
CA A:LYS500 4.9 78.5 1.0
ND2 A:ASN862 4.9 93.5 1.0
N A:THR740 4.9 73.3 1.0

Fluorine binding site 4 out of 4 in 8op8

Go back to Fluorine Binding Sites List in 8op8
Fluorine binding site 4 out of 4 in the Cryo-Em Structure of P5A-Atpase CTSPF1 (E2.Pi State with Endogenous Helix Cargo Bound)


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 P5A-Atpase CTSPF1 (E2.Pi State with Endogenous Helix Cargo Bound) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F1401

b:104.2
occ:1.00
 F4 A:ALF1401 0.0 104.2 1.0
AL A:ALF1401 1.8 85.2 1.0
MG A:MG1402 2.0 98.3 1.0
OD2 A:ASP499 2.2 93.1 1.0
F1 A:ALF1401 2.5 96.6 1.0
F2 A:ALF1401 2.5 102.7 1.0
CG A:ASP499 3.1 84.8 1.0
OD1 A:ASP499 3.3 86.6 1.0
OD1 A:ASN862 3.4 93.2 1.0
OD2 A:ASP863 3.5 84.8 1.0
F3 A:ALF1401 3.6 89.9 1.0
ND2 A:ASN862 3.7 93.5 1.0
CG A:ASN862 4.0 91.3 1.0
NZ A:LYS840 4.0 90.6 1.0
OD1 A:ASP859 4.2 82.9 1.0
N A:GLY860 4.4 88.5 1.0
CA A:GLY860 4.4 88.9 1.0
CG A:ASP863 4.5 86.1 1.0
CB A:ASP499 4.5 76.4 1.0
CA A:GLY314 4.7 110.0 1.0
O A:GLY314 4.8 105.9 1.0
OD1 A:ASP863 5.0 93.7 1.0

Reference:

P.Li, P.Gourdon. Cryo-Em Structural Insights Into P5A-Atpase CTSPF1 To Be Published.
Page generated: Thu Oct 31 19:53:31 2024

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