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:
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
|