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Fluorine in PDB 8zmy: F0502B-Bound Wt Polymorph 5A Alpha-Synuclein Fibril

Other elements in 8zmy:

The structure of F0502B-Bound Wt Polymorph 5A Alpha-Synuclein Fibril also contains other interesting chemical elements:

Bromine (Br) 15 atoms

Fluorine Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 15;

Binding sites:

The binding sites of Fluorine atom in the F0502B-Bound Wt Polymorph 5A Alpha-Synuclein Fibril (pdb code 8zmy). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total 15 binding sites of Fluorine where determined in the F0502B-Bound Wt Polymorph 5A Alpha-Synuclein Fibril, PDB code: 8zmy:
Jump to Fluorine binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Fluorine binding site 1 out of 15 in 8zmy

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Fluorine binding site 1 out of 15 in the F0502B-Bound Wt Polymorph 5A Alpha-Synuclein Fibril


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 1 of F0502B-Bound Wt Polymorph 5A Alpha-Synuclein Fibril within 5.0Å range:
probe atom residue distance (Å) B Occ
C:F101

b:60.4
occ:1.00
 F10 C:1KI101 0.0 60.4 1.0
C09 C:1KI101 1.4 60.4 1.0
C08 C:1KI101 2.4 60.4 1.0
OG1 C:THR92 2.9 57.8 1.0
O07 C:1KI101 3.6 60.4 1.0
CB C:ALA90 3.8 54.5 1.0
CB C:THR92 4.3 57.8 1.0
O C:ALA91 4.5 54.9 1.0
C06 C:1KI101 4.5 60.4 1.0
N C:ALA91 4.6 54.9 1.0
C C:ALA91 4.7 54.9 1.0
C C:ALA90 4.8 54.5 1.0
CA C:ALA90 4.8 54.5 1.0
C09 G:1KI103 4.8 60.4 1.0
F10 G:1KI103 4.9 60.4 1.0

Fluorine binding site 2 out of 15 in 8zmy

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Fluorine binding site 2 out of 15 in the F0502B-Bound Wt Polymorph 5A Alpha-Synuclein Fibril


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 2 of F0502B-Bound Wt Polymorph 5A Alpha-Synuclein Fibril within 5.0Å range:
probe atom residue distance (Å) B Occ
F:F101

b:60.4
occ:1.00
 F10 F:1KI101 0.0 60.4 1.0
C09 F:1KI101 1.4 60.4 1.0
C08 F:1KI101 2.4 60.4 1.0
OG1 F:THR92 2.9 57.8 1.0
O07 F:1KI101 3.6 60.4 1.0
CB F:ALA90 4.0 54.5 1.0
CB F:THR92 4.2 57.8 1.0
O F:ALA91 4.5 54.9 1.0
C06 F:1KI101 4.5 60.4 1.0
N F:ALA91 4.7 54.9 1.0
C F:ALA91 4.7 54.9 1.0
C09 J:1KI102 4.8 60.4 1.0
CG2 F:THR92 4.9 57.8 1.0
C F:ALA90 4.9 54.5 1.0
F10 J:1KI102 4.9 60.4 1.0
CA F:ALA90 5.0 54.5 1.0

Fluorine binding site 3 out of 15 in 8zmy

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Fluorine binding site 3 out of 15 in the F0502B-Bound Wt Polymorph 5A Alpha-Synuclein Fibril


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 3 of F0502B-Bound Wt Polymorph 5A Alpha-Synuclein Fibril within 5.0Å range:
probe atom residue distance (Å) B Occ
G:F101

b:60.4
occ:1.00
 F10 G:1KI101 0.0 60.4 1.0
C09 G:1KI101 1.4 60.4 1.0
C08 G:1KI101 2.4 60.4 1.0
O H:MET5 2.5 57.0 1.0
C I:MET5 3.2 57.0 1.0
N I:LYS6 3.2 54.5 1.0
CA I:MET5 3.4 57.0 1.0
N I:MET5 3.4 57.0 1.0
CB I:LYS6 3.5 54.5 1.0
O I:PHE4 3.5 53.1 1.0
C I:PHE4 3.6 53.1 1.0
O07 G:1KI101 3.6 60.4 1.0
C H:MET5 3.6 57.0 1.0
O I:MET5 3.7 57.0 1.0
N H:MET5 4.0 57.0 1.0
CA I:LYS6 4.0 54.5 1.0
CE I:LYS6 4.2 54.5 1.0
CB I:PHE4 4.3 53.1 1.0
CA H:MET5 4.4 57.0 1.0
CA I:PHE4 4.5 53.1 1.0
C06 G:1KI101 4.5 60.4 1.0
CG I:LYS6 4.6 54.5 1.0
N H:LYS6 4.6 54.5 1.0
NZ H:LYS6 4.7 54.5 1.0
CA H:LYS6 4.7 54.5 1.0
NZ I:LYS6 4.8 54.5 1.0
CG H:LYS6 4.9 54.5 1.0
CD I:LYS6 4.9 54.5 1.0
CB I:MET5 4.9 57.0 1.0
C H:PHE4 4.9 53.1 1.0
CB H:LYS6 5.0 54.5 1.0

Fluorine binding site 4 out of 15 in 8zmy

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Fluorine binding site 4 out of 15 in the F0502B-Bound Wt Polymorph 5A Alpha-Synuclein Fibril


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 4 of F0502B-Bound Wt Polymorph 5A Alpha-Synuclein Fibril within 5.0Å range:
probe atom residue distance (Å) B Occ
G:F102

b:60.4
occ:1.00
 F10 G:1KI102 0.0 60.4 1.0
C09 G:1KI102 1.4 60.4 1.0
C08 G:1KI102 2.2 60.4 1.0
OD2 H:ASP2 2.9 62.6 1.0
OD1 H:ASP2 3.1 62.6 1.0
NZ G:LYS10 3.1 52.1 1.0
CE H:LYS10 3.2 52.1 1.0
CG H:ASP2 3.3 62.6 1.0
O07 G:1KI102 3.4 60.4 1.0
NZ H:LYS10 3.4 52.1 1.0
CE G:LYS10 4.0 52.1 1.0
C06 G:1KI102 4.4 60.4 1.0
OD2 G:ASP2 4.5 62.6 1.0
CH3 H:ACE0 4.5 65.8 1.0
CD H:LYS10 4.7 52.1 1.0
N H:MET1 4.7 66.4 1.0
CB H:ASP2 4.8 62.6 1.0
CD G:LYS10 4.8 52.1 1.0
C05 G:1KI102 4.9 60.4 1.0

Fluorine binding site 5 out of 15 in 8zmy

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Fluorine binding site 5 out of 15 in the F0502B-Bound Wt Polymorph 5A Alpha-Synuclein Fibril


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 5 of F0502B-Bound Wt Polymorph 5A Alpha-Synuclein Fibril within 5.0Å range:
probe atom residue distance (Å) B Occ
G:F103

b:60.4
occ:1.00
 F10 G:1KI103 0.0 60.4 1.0
C09 G:1KI103 1.4 60.4 1.0
C08 G:1KI103 2.4 60.4 1.0
OG1 G:THR92 3.1 57.8 1.0
O07 G:1KI103 3.6 60.4 1.0
CB G:ALA90 3.6 54.5 1.0
N G:ALA91 4.5 54.9 1.0
CB G:THR92 4.5 57.8 1.0
O G:ALA91 4.5 54.9 1.0
C06 G:1KI103 4.5 60.4 1.0
CA G:ALA90 4.6 54.5 1.0
C G:ALA90 4.7 54.5 1.0
C09 H:1KI101 4.7 60.4 1.0
C G:ALA91 4.7 54.9 1.0
F10 H:1KI101 4.9 60.4 1.0
F10 C:1KI101 4.9 60.4 1.0

Fluorine binding site 6 out of 15 in 8zmy

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Fluorine binding site 6 out of 15 in the F0502B-Bound Wt Polymorph 5A Alpha-Synuclein Fibril


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 6 of F0502B-Bound Wt Polymorph 5A Alpha-Synuclein Fibril within 5.0Å range:
probe atom residue distance (Å) B Occ
G:F104

b:60.4
occ:1.00
 F10 G:1KI104 0.0 60.4 1.0
C09 G:1KI104 1.4 60.4 1.0
O H:LYS10 2.3 52.1 1.0
C08 G:1KI104 2.3 60.4 1.0
O07 G:1KI104 2.5 60.4 1.0
C H:LYS10 3.0 52.1 1.0
N H:ALA11 3.5 53.6 1.0
CA H:ALA11 3.6 53.6 1.0
C06 G:1KI104 3.8 60.4 1.0
CA H:LYS10 4.0 52.1 1.0
C H:ALA11 4.1 53.6 1.0
O I:ALA11 4.2 53.6 1.0
CB H:LYS10 4.3 52.1 1.0
O H:ALA11 4.3 53.6 1.0
CA I:LYS10 4.4 52.1 1.0
N I:ALA11 4.6 53.6 1.0
C I:LYS10 4.6 52.1 1.0
N H:LYS12 4.8 55.7 1.0
C05 G:1KI104 4.9 60.4 1.0
CB H:ALA11 4.9 53.6 1.0
CG H:LYS12 5.0 55.7 1.0

Fluorine binding site 7 out of 15 in 8zmy

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Fluorine binding site 7 out of 15 in the F0502B-Bound Wt Polymorph 5A Alpha-Synuclein Fibril


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 7 of F0502B-Bound Wt Polymorph 5A Alpha-Synuclein Fibril within 5.0Å range:
probe atom residue distance (Å) B Occ
H:F101

b:60.4
occ:1.00
 F10 H:1KI101 0.0 60.4 1.0
C09 H:1KI101 1.4 60.4 1.0
C08 H:1KI101 2.4 60.4 1.0
OG1 H:THR92 3.2 57.8 1.0
CB H:ALA90 3.5 54.5 1.0
O07 H:1KI101 3.6 60.4 1.0
N H:ALA91 4.4 54.9 1.0
CA H:ALA90 4.5 54.5 1.0
O H:ALA91 4.5 54.9 1.0
C06 H:1KI101 4.5 60.4 1.0
CB H:THR92 4.6 57.8 1.0
C H:ALA90 4.6 54.5 1.0
C H:ALA91 4.7 54.9 1.0
F10 G:1KI103 4.9 60.4 1.0

Fluorine binding site 8 out of 15 in 8zmy

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Fluorine binding site 8 out of 15 in the F0502B-Bound Wt Polymorph 5A Alpha-Synuclein Fibril


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 8 of F0502B-Bound Wt Polymorph 5A Alpha-Synuclein Fibril within 5.0Å range:
probe atom residue distance (Å) B Occ
H:F102

b:60.4
occ:1.00
 F10 H:1KI102 0.0 60.4 1.0
C09 H:1KI102 1.4 60.4 1.0
O I:GLY41 2.3 52.8 1.0
C08 H:1KI102 2.3 60.4 1.0
O07 H:1KI102 2.5 60.4 1.0
C I:GLY41 2.8 52.8 1.0
CA I:GLY41 2.9 52.8 1.0
O07 J:1KI101 3.7 60.4 1.0
C06 H:1KI102 3.9 60.4 1.0
N I:SER42 3.9 53.7 1.0
N I:GLY41 4.3 52.8 1.0
C06 J:1KI101 4.4 60.4 1.0
O I:SER42 4.6 53.7 1.0
C05 H:1KI102 4.6 60.4 1.0
CA I:SER42 4.6 53.7 1.0
C I:SER42 4.8 53.7 1.0
C09 J:1KI101 4.8 60.4 1.0
C08 J:1KI101 4.8 60.4 1.0
CD K:LYS10 5.0 52.1 1.0

Fluorine binding site 9 out of 15 in 8zmy

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Fluorine binding site 9 out of 15 in the F0502B-Bound Wt Polymorph 5A Alpha-Synuclein Fibril


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 9 of F0502B-Bound Wt Polymorph 5A Alpha-Synuclein Fibril within 5.0Å range:
probe atom residue distance (Å) B Occ
H:F103

b:60.4
occ:1.00
 F10 H:1KI103 0.0 60.4 1.0
C09 H:1KI103 1.4 60.4 1.0
C I:ACE0 2.3 65.8 1.0
C08 H:1KI103 2.4 60.4 1.0
O H:ACE0 2.4 65.8 1.0
CH3 I:ACE0 2.5 65.8 1.0
O I:ACE0 2.6 65.8 1.0
N I:MET1 2.9 66.4 1.0
O07 H:1KI103 3.3 60.4 1.0
C H:ACE0 3.5 65.8 1.0
CB I:MET1 3.5 66.4 1.0
CA I:MET1 3.8 66.4 1.0
CE L:MET1 4.0 66.4 1.0
CH3 H:ACE0 4.2 65.8 1.0
N H:MET1 4.4 66.4 1.0
CG1 L:VAL40 4.5 52.1 1.0
C06 H:1KI103 4.5 60.4 1.0
CE I:MET1 4.6 66.4 1.0
CA H:MET1 4.7 66.4 1.0
C05 H:1KI103 4.8 60.4 1.0
CG I:MET1 4.9 66.4 1.0
CB H:MET1 4.9 66.4 1.0
C I:MET1 5.0 66.4 1.0

Fluorine binding site 10 out of 15 in 8zmy

Go back to Fluorine Binding Sites List in 8zmy
Fluorine binding site 10 out of 15 in the F0502B-Bound Wt Polymorph 5A Alpha-Synuclein Fibril


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 10 of F0502B-Bound Wt Polymorph 5A Alpha-Synuclein Fibril within 5.0Å range:
probe atom residue distance (Å) B Occ
J:F101

b:60.4
occ:1.00
 F10 J:1KI101 0.0 60.4 1.0
C09 J:1KI101 1.4 60.4 1.0
C08 J:1KI101 2.2 60.4 1.0
OD2 K:ASP2 2.9 62.6 1.0
NZ J:LYS10 3.0 52.1 1.0
OD1 K:ASP2 3.1 62.6 1.0
CE K:LYS10 3.2 52.1 1.0
CG K:ASP2 3.3 62.6 1.0
O07 J:1KI101 3.4 60.4 1.0
NZ K:LYS10 3.5 52.1 1.0
CE J:LYS10 3.9 52.1 1.0
C06 J:1KI101 4.4 60.4 1.0
OD2 J:ASP2 4.4 62.6 1.0
CH3 K:ACE0 4.6 65.8 1.0
CD K:LYS10 4.6 52.1 1.0
CD J:LYS10 4.7 52.1 1.0
N K:MET1 4.7 66.4 1.0
CB K:ASP2 4.8 62.6 1.0
C05 J:1KI101 4.9 60.4 1.0

Reference:

K.Liu, Y.Tao, Q.Zhao, W.Xia, X.Li, S.Zhang, Y.Yao, H.Xiang, C.Han, L.Tan, B.Sun, D.Li, A.Li, C.Liu. Binding Adaptability of Chemical Ligands to Polymorphic Alpha-Synuclein Amyloid Fibrils. Proc.Natl.Acad.Sci.Usa V. 121 33121 2024.
ISSN: ESSN 1091-6490
PubMed: 39172784
DOI: 10.1073/PNAS.2321633121
Page generated: Wed Jul 16 10:18:40 2025

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