Atomistry » Fluorine » PDB 3uyt-3vrb » 3vr9
Atomistry »
  Fluorine »
    PDB 3uyt-3vrb »
      3vr9 »

Fluorine in PDB 3vr9: Mitochondrial Rhodoquinol-Fumarate Reductase From the Parasitic Nematode Ascaris Suum with the Specific Inhibitor Flutolanil

Protein crystallography data

The structure of Mitochondrial Rhodoquinol-Fumarate Reductase From the Parasitic Nematode Ascaris Suum with the Specific Inhibitor Flutolanil, PDB code: 3vr9 was solved by H.Shimizu, T.Shiba, D.K.Inaoka, A.Osanai, K.Kita, K.Sakamoto, S.Harada, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 47.39 / 3.01
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 124.011, 135.333, 220.498, 90.00, 90.00, 90.00
R / Rfree (%) 21.6 / 27.7

Other elements in 3vr9:

The structure of Mitochondrial Rhodoquinol-Fumarate Reductase From the Parasitic Nematode Ascaris Suum with the Specific Inhibitor Flutolanil also contains other interesting chemical elements:

Iron (Fe) 20 atoms

Fluorine Binding Sites:

The binding sites of Fluorine atom in the Mitochondrial Rhodoquinol-Fumarate Reductase From the Parasitic Nematode Ascaris Suum with the Specific Inhibitor Flutolanil (pdb code 3vr9). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total 6 binding sites of Fluorine where determined in the Mitochondrial Rhodoquinol-Fumarate Reductase From the Parasitic Nematode Ascaris Suum with the Specific Inhibitor Flutolanil, PDB code: 3vr9:
Jump to Fluorine binding site number: 1; 2; 3; 4; 5; 6;

Fluorine binding site 1 out of 6 in 3vr9

Go back to Fluorine Binding Sites List in 3vr9
Fluorine binding site 1 out of 6 in the Mitochondrial Rhodoquinol-Fumarate Reductase From the Parasitic Nematode Ascaris Suum with the Specific Inhibitor Flutolanil


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 1 of Mitochondrial Rhodoquinol-Fumarate Reductase From the Parasitic Nematode Ascaris Suum with the Specific Inhibitor Flutolanil within 5.0Å range:
probe atom residue distance (Å) B Occ
C:F202

b:76.2
occ:1.00
F1 C:FTN202 0.0 76.2 1.0
C1 C:FTN202 1.3 74.0 1.0
F3 C:FTN202 2.1 73.9 1.0
F2 C:FTN202 2.2 73.8 1.0
C2 C:FTN202 2.3 74.3 1.0
O1 C:FTN202 2.6 74.8 1.0
C3 C:FTN202 2.9 76.0 1.0
NH1 C:ARG76 3.0 66.7 1.0
C8 C:FTN202 3.1 76.1 1.0
CD1 B:TRP197 3.3 65.2 1.0
C7 C:FTN202 3.3 75.8 1.0
CE2 D:TYR107 3.3 74.8 1.0
OH D:TYR107 3.5 75.4 1.0
NE1 B:TRP197 3.5 64.6 1.0
OD1 D:ASP106 3.6 73.5 1.0
CZ D:TYR107 3.8 75.3 1.0
CZ C:ARG76 4.1 65.4 1.0
CG D:ASP106 4.1 73.8 1.0
CB D:ASP106 4.2 74.3 1.0
C4 C:FTN202 4.2 77.5 1.0
O B:PRO193 4.3 64.3 1.0
CD2 D:TYR107 4.3 74.9 1.0
N C:FTN202 4.4 75.8 1.0
C6 C:FTN202 4.5 77.6 1.0
CG B:TRP197 4.6 64.8 1.0
NH2 C:ARG76 4.7 65.1 1.0
CE2 B:TRP197 4.8 65.3 1.0
C5 C:FTN202 4.9 78.8 1.0
C B:PRO193 5.0 64.3 1.0
CE1 D:TYR107 5.0 75.0 1.0

Fluorine binding site 2 out of 6 in 3vr9

Go back to Fluorine Binding Sites List in 3vr9
Fluorine binding site 2 out of 6 in the Mitochondrial Rhodoquinol-Fumarate Reductase From the Parasitic Nematode Ascaris Suum with the Specific Inhibitor Flutolanil


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 2 of Mitochondrial Rhodoquinol-Fumarate Reductase From the Parasitic Nematode Ascaris Suum with the Specific Inhibitor Flutolanil within 5.0Å range:
probe atom residue distance (Å) B Occ
C:F202

b:73.8
occ:1.00
F2 C:FTN202 0.0 73.8 1.0
C1 C:FTN202 1.3 74.0 1.0
F3 C:FTN202 2.1 73.9 1.0
F1 C:FTN202 2.2 76.2 1.0
C2 C:FTN202 2.2 74.3 1.0
C3 C:FTN202 3.0 76.0 1.0
C8 C:FTN202 3.2 76.1 1.0
C7 C:FTN202 3.3 75.8 1.0
O1 C:FTN202 3.3 74.8 1.0
O B:PRO193 3.5 64.3 1.0
C B:PRO193 3.5 64.3 1.0
CD1 B:ILE242 3.6 68.7 1.0
N B:SER194 3.7 64.5 1.0
CA B:SER194 3.7 65.1 1.0
CB B:PRO193 3.8 64.3 1.0
CB B:SER194 3.9 65.5 1.0
N C:FTN202 4.1 75.8 1.0
C4 C:FTN202 4.2 77.5 1.0
CD1 B:TRP197 4.2 65.2 1.0
CA B:PRO193 4.3 64.0 1.0
NE1 B:TRP197 4.3 64.6 1.0
OG B:SER194 4.4 66.6 1.0
C6 C:FTN202 4.4 77.6 1.0
NH1 C:ARG76 4.7 66.7 1.0
CG B:PRO193 4.7 63.4 1.0
OD1 D:ASP106 4.8 73.5 1.0
C5 C:FTN202 4.8 78.8 1.0
CD B:PRO193 4.8 63.1 1.0
C9 C:FTN202 4.9 74.5 1.0
N B:PRO193 5.0 63.0 1.0
CG1 B:ILE242 5.0 66.7 1.0

Fluorine binding site 3 out of 6 in 3vr9

Go back to Fluorine Binding Sites List in 3vr9
Fluorine binding site 3 out of 6 in the Mitochondrial Rhodoquinol-Fumarate Reductase From the Parasitic Nematode Ascaris Suum with the Specific Inhibitor Flutolanil


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 3 of Mitochondrial Rhodoquinol-Fumarate Reductase From the Parasitic Nematode Ascaris Suum with the Specific Inhibitor Flutolanil within 5.0Å range:
probe atom residue distance (Å) B Occ
C:F202

b:73.9
occ:1.00
F3 C:FTN202 0.0 73.9 1.0
C1 C:FTN202 1.3 74.0 1.0
F2 C:FTN202 2.1 73.8 1.0
F1 C:FTN202 2.1 76.2 1.0
C2 C:FTN202 2.3 74.3 1.0
C7 C:FTN202 2.6 75.8 1.0
OD1 D:ASP106 2.8 73.5 1.0
CG D:ASP106 3.5 73.8 1.0
NH1 C:ARG76 3.6 66.7 1.0
CD2 B:HIS240 3.7 70.9 1.0
C3 C:FTN202 3.7 76.0 1.0
OG B:SER194 3.9 66.6 1.0
CG B:HIS240 3.9 69.8 1.0
C6 C:FTN202 4.0 77.6 1.0
OD2 D:ASP106 4.1 71.7 1.0
CB B:SER194 4.1 65.5 1.0
NH2 C:ARG76 4.2 65.1 1.0
CZ C:ARG76 4.2 65.4 1.0
CB B:HIS240 4.2 70.0 1.0
CB D:ASP106 4.3 74.3 1.0
NE2 B:HIS240 4.3 72.4 1.0
CA B:SER194 4.4 65.1 1.0
O1 C:FTN202 4.4 74.8 1.0
C8 C:FTN202 4.5 76.1 1.0
ND1 B:HIS240 4.7 70.0 1.0
CD1 B:ILE242 4.7 68.7 1.0
C4 C:FTN202 4.8 77.5 1.0
CD1 B:TRP197 4.8 65.2 1.0
C5 C:FTN202 4.9 78.8 1.0
CE1 B:HIS240 4.9 72.5 1.0
O B:PRO193 4.9 64.3 1.0
N B:SER194 5.0 64.5 1.0

Fluorine binding site 4 out of 6 in 3vr9

Go back to Fluorine Binding Sites List in 3vr9
Fluorine binding site 4 out of 6 in the Mitochondrial Rhodoquinol-Fumarate Reductase From the Parasitic Nematode Ascaris Suum with the Specific Inhibitor Flutolanil


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 4 of Mitochondrial Rhodoquinol-Fumarate Reductase From the Parasitic Nematode Ascaris Suum with the Specific Inhibitor Flutolanil within 5.0Å range:
probe atom residue distance (Å) B Occ
F:F304

b:68.4
occ:1.00
F1 F:FTN304 0.0 68.4 1.0
C1 F:FTN304 1.3 67.8 1.0
F2 F:FTN304 2.2 66.9 1.0
F3 F:FTN304 2.2 67.0 1.0
C2 F:FTN304 2.3 67.4 1.0
O1 F:FTN304 2.6 65.3 1.0
CE2 H:TYR107 3.0 74.8 1.0
C3 F:FTN304 3.0 66.8 1.0
NH1 G:ARG76 3.1 68.8 1.0
OH H:TYR107 3.1 75.3 1.0
C8 F:FTN304 3.2 67.1 1.0
NE1 F:TRP197 3.2 60.1 1.0
C7 F:FTN304 3.3 67.4 1.0
CD1 F:TRP197 3.3 59.3 1.0
CZ H:TYR107 3.4 74.6 1.0
OD1 H:ASP106 3.4 75.5 1.0
CD2 H:TYR107 4.0 74.3 1.0
CG H:ASP106 4.0 75.8 1.0
CB H:ASP106 4.2 76.2 1.0
CZ G:ARG76 4.3 68.7 1.0
C4 F:FTN304 4.3 66.7 1.0
C6 F:FTN304 4.5 69.1 1.0
N F:FTN304 4.5 69.7 1.0
CE2 F:TRP197 4.5 59.5 1.0
CE1 H:TYR107 4.6 74.2 1.0
CG F:TRP197 4.7 60.9 1.0
CA F:SER194 4.8 65.0 1.0
NH2 G:ARG76 4.8 68.7 1.0
C5 F:FTN304 4.9 68.4 1.0
N F:SER194 4.9 65.7 1.0
OD2 H:ASP106 5.0 73.9 1.0

Fluorine binding site 5 out of 6 in 3vr9

Go back to Fluorine Binding Sites List in 3vr9
Fluorine binding site 5 out of 6 in the Mitochondrial Rhodoquinol-Fumarate Reductase From the Parasitic Nematode Ascaris Suum with the Specific Inhibitor Flutolanil


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 5 of Mitochondrial Rhodoquinol-Fumarate Reductase From the Parasitic Nematode Ascaris Suum with the Specific Inhibitor Flutolanil within 5.0Å range:
probe atom residue distance (Å) B Occ
F:F304

b:66.9
occ:1.00
F2 F:FTN304 0.0 66.9 1.0
C1 F:FTN304 1.3 67.8 1.0
F3 F:FTN304 2.1 67.0 1.0
F1 F:FTN304 2.2 68.4 1.0
C2 F:FTN304 2.3 67.4 1.0
O1 F:FTN304 2.8 65.3 1.0
C3 F:FTN304 3.0 66.8 1.0
C8 F:FTN304 3.0 67.1 1.0
N F:SER194 3.1 65.7 1.0
NE1 F:TRP197 3.3 60.1 1.0
CA F:SER194 3.4 65.0 1.0
CB F:PRO193 3.4 65.7 1.0
C7 F:FTN304 3.4 67.4 1.0
C F:PRO193 3.5 66.0 1.0
CD1 F:TRP197 3.6 59.3 1.0
CD1 F:ILE242 3.7 70.6 1.0
CB F:SER194 3.8 65.1 1.0
N F:FTN304 4.0 69.7 1.0
O F:PRO193 4.1 66.1 1.0
CA F:PRO193 4.1 65.8 1.0
CG F:PRO193 4.2 65.8 1.0
C4 F:FTN304 4.3 66.7 1.0
CE2 F:TRP197 4.4 59.5 1.0
C6 F:FTN304 4.6 69.1 1.0
OG F:SER194 4.7 63.9 1.0
OH H:TYR107 4.7 75.3 1.0
C9 F:FTN304 4.7 71.5 1.0
CD F:PRO193 4.8 65.5 1.0
N F:PRO193 4.8 65.6 1.0
C F:SER194 4.8 64.8 1.0
CE2 H:TYR107 4.9 74.8 1.0
CG F:TRP197 4.9 60.9 1.0
OD1 H:ASP106 4.9 75.5 1.0
NH1 G:ARG76 4.9 68.8 1.0
C5 F:FTN304 4.9 68.4 1.0

Fluorine binding site 6 out of 6 in 3vr9

Go back to Fluorine Binding Sites List in 3vr9
Fluorine binding site 6 out of 6 in the Mitochondrial Rhodoquinol-Fumarate Reductase From the Parasitic Nematode Ascaris Suum with the Specific Inhibitor Flutolanil


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 6 of Mitochondrial Rhodoquinol-Fumarate Reductase From the Parasitic Nematode Ascaris Suum with the Specific Inhibitor Flutolanil within 5.0Å range:
probe atom residue distance (Å) B Occ
F:F304

b:67.0
occ:1.00
F3 F:FTN304 0.0 67.0 1.0
C1 F:FTN304 1.3 67.8 1.0
F2 F:FTN304 2.1 66.9 1.0
F1 F:FTN304 2.2 68.4 1.0
C2 F:FTN304 2.4 67.4 1.0
C7 F:FTN304 2.7 67.4 1.0
OD1 H:ASP106 3.1 75.5 1.0
CB F:SER194 3.5 65.1 1.0
CD2 F:HIS240 3.7 70.6 1.0
OG F:SER194 3.7 63.9 1.0
CA F:SER194 3.7 65.0 1.0
C3 F:FTN304 3.7 66.8 1.0
CG H:ASP106 3.8 75.8 1.0
CG F:HIS240 3.9 70.5 1.0
C6 F:FTN304 4.1 69.1 1.0
NH1 G:ARG76 4.1 68.8 1.0
NE2 F:HIS240 4.1 72.9 1.0
N F:SER194 4.2 65.7 1.0
OD2 H:ASP106 4.2 73.9 1.0
O1 F:FTN304 4.3 65.3 1.0
CB F:HIS240 4.4 71.5 1.0
CD1 F:TRP197 4.4 59.3 1.0
C8 F:FTN304 4.4 67.1 1.0
ND1 F:HIS240 4.5 70.7 1.0
CD1 F:ILE242 4.5 70.6 1.0
NE1 F:TRP197 4.6 60.1 1.0
CE1 F:HIS240 4.6 72.4 1.0
CB H:ASP106 4.7 76.2 1.0
CZ G:ARG76 4.8 68.7 1.0
NH2 G:ARG76 4.8 68.7 1.0
C4 F:FTN304 4.9 66.7 1.0
O F:LYS238 5.0 72.3 1.0
C5 F:FTN304 5.0 68.4 1.0

Reference:

H.Shimizu, T.Shiba, D.K.Inaoka, A.Osanai, K.Kita, K.Sakamoto, S.Harada. Crystal Structure of Mitochondrial Quinol-Fumarate Reductase From Parasitic Nematode Ascaris Suum To Be Published.
Page generated: Sun Dec 13 11:57:12 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy