Iron in PDB 6haw: Crystal Structure of Bovine Cytochrome BC1 in Complex with 2-Pyrazolyl Quinolone Inhibitor WDH2G7
Enzymatic activity of Crystal Structure of Bovine Cytochrome BC1 in Complex with 2-Pyrazolyl Quinolone Inhibitor WDH2G7
All present enzymatic activity of Crystal Structure of Bovine Cytochrome BC1 in Complex with 2-Pyrazolyl Quinolone Inhibitor WDH2G7:
1.10.2.2;
Protein crystallography data
The structure of Crystal Structure of Bovine Cytochrome BC1 in Complex with 2-Pyrazolyl Quinolone Inhibitor WDH2G7, PDB code: 6haw
was solved by
K.Amporndanai,
W.D.Hong,
P.M.O'neill,
S.S.Hasnain,
S.V.Antonyuk,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
92.10 /
3.45
|
Space group
|
P 65 2 2
|
Cell size a, b, c (Å), α, β, γ (°)
|
212.690,
212.690,
347.066,
90.00,
90.00,
120.00
|
R / Rfree (%)
|
21 /
24.2
|
Other elements in 6haw:
The structure of Crystal Structure of Bovine Cytochrome BC1 in Complex with 2-Pyrazolyl Quinolone Inhibitor WDH2G7 also contains other interesting chemical elements:
Iron Binding Sites:
The binding sites of Iron atom in the Crystal Structure of Bovine Cytochrome BC1 in Complex with 2-Pyrazolyl Quinolone Inhibitor WDH2G7
(pdb code 6haw). This binding sites where shown within
5.0 Angstroms radius around Iron atom.
In total 5 binding sites of Iron where determined in the
Crystal Structure of Bovine Cytochrome BC1 in Complex with 2-Pyrazolyl Quinolone Inhibitor WDH2G7, PDB code: 6haw:
Jump to Iron binding site number:
1;
2;
3;
4;
5;
Iron binding site 1 out
of 5 in 6haw
Go back to
Iron Binding Sites List in 6haw
Iron binding site 1 out
of 5 in the Crystal Structure of Bovine Cytochrome BC1 in Complex with 2-Pyrazolyl Quinolone Inhibitor WDH2G7
Mono view
Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 1 of Crystal Structure of Bovine Cytochrome BC1 in Complex with 2-Pyrazolyl Quinolone Inhibitor WDH2G7 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Fe401
b:71.7
occ:1.00
|
FE
|
C:HEM401
|
0.0
|
71.7
|
1.0
|
ND
|
C:HEM401
|
1.9
|
74.1
|
1.0
|
NA
|
C:HEM401
|
2.0
|
73.9
|
1.0
|
NC
|
C:HEM401
|
2.1
|
72.5
|
1.0
|
NB
|
C:HEM401
|
2.1
|
72.1
|
1.0
|
NE2
|
C:HIS83
|
2.2
|
72.6
|
1.0
|
NE2
|
C:HIS182
|
2.2
|
75.3
|
1.0
|
C4D
|
C:HEM401
|
2.9
|
75.4
|
1.0
|
C1D
|
C:HEM401
|
2.9
|
74.0
|
1.0
|
C1A
|
C:HEM401
|
3.0
|
75.6
|
1.0
|
C4A
|
C:HEM401
|
3.0
|
74.2
|
1.0
|
C4C
|
C:HEM401
|
3.1
|
73.0
|
1.0
|
C1B
|
C:HEM401
|
3.1
|
72.7
|
1.0
|
C4B
|
C:HEM401
|
3.1
|
72.7
|
1.0
|
CE1
|
C:HIS182
|
3.1
|
76.5
|
1.0
|
CE1
|
C:HIS83
|
3.1
|
72.6
|
1.0
|
C1C
|
C:HEM401
|
3.1
|
72.7
|
1.0
|
CD2
|
C:HIS83
|
3.3
|
74.1
|
1.0
|
CD2
|
C:HIS182
|
3.3
|
77.0
|
1.0
|
CHA
|
C:HEM401
|
3.3
|
76.2
|
1.0
|
CHD
|
C:HEM401
|
3.4
|
73.8
|
1.0
|
CHB
|
C:HEM401
|
3.5
|
73.7
|
1.0
|
CHC
|
C:HEM401
|
3.5
|
72.9
|
1.0
|
C2A
|
C:HEM401
|
4.2
|
76.3
|
1.0
|
C3D
|
C:HEM401
|
4.2
|
75.9
|
1.0
|
C2D
|
C:HEM401
|
4.2
|
75.0
|
1.0
|
C3A
|
C:HEM401
|
4.2
|
75.7
|
1.0
|
ND1
|
C:HIS182
|
4.3
|
76.8
|
1.0
|
ND1
|
C:HIS83
|
4.3
|
73.5
|
1.0
|
C3C
|
C:HEM401
|
4.3
|
72.9
|
1.0
|
C2C
|
C:HEM401
|
4.3
|
72.7
|
1.0
|
C2B
|
C:HEM401
|
4.3
|
71.8
|
1.0
|
C3B
|
C:HEM401
|
4.4
|
72.0
|
1.0
|
CG
|
C:HIS83
|
4.4
|
73.8
|
1.0
|
CG
|
C:HIS182
|
4.4
|
76.9
|
1.0
|
CA
|
C:GLY130
|
4.9
|
90.0
|
1.0
|
|
Iron binding site 2 out
of 5 in 6haw
Go back to
Iron Binding Sites List in 6haw
Iron binding site 2 out
of 5 in the Crystal Structure of Bovine Cytochrome BC1 in Complex with 2-Pyrazolyl Quinolone Inhibitor WDH2G7
Mono view
Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 2 of Crystal Structure of Bovine Cytochrome BC1 in Complex with 2-Pyrazolyl Quinolone Inhibitor WDH2G7 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Fe402
b:65.6
occ:1.00
|
FE
|
C:HEM402
|
0.0
|
65.6
|
1.0
|
ND
|
C:HEM402
|
1.9
|
68.0
|
1.0
|
NA
|
C:HEM402
|
2.0
|
66.6
|
1.0
|
NC
|
C:HEM402
|
2.1
|
67.4
|
1.0
|
NB
|
C:HEM402
|
2.1
|
66.8
|
1.0
|
NE2
|
C:HIS196
|
2.2
|
64.8
|
1.0
|
NE2
|
C:HIS97
|
2.2
|
71.5
|
1.0
|
C4D
|
C:HEM402
|
2.9
|
68.0
|
1.0
|
C1D
|
C:HEM402
|
2.9
|
69.0
|
1.0
|
C1A
|
C:HEM402
|
3.0
|
66.7
|
1.0
|
C4C
|
C:HEM402
|
3.0
|
68.2
|
1.0
|
C4A
|
C:HEM402
|
3.1
|
66.3
|
1.0
|
C4B
|
C:HEM402
|
3.1
|
67.8
|
1.0
|
C1B
|
C:HEM402
|
3.1
|
66.5
|
1.0
|
CE1
|
C:HIS97
|
3.1
|
73.5
|
1.0
|
C1C
|
C:HEM402
|
3.1
|
68.5
|
1.0
|
CD2
|
C:HIS196
|
3.2
|
64.9
|
1.0
|
CE1
|
C:HIS196
|
3.2
|
66.0
|
1.0
|
CD2
|
C:HIS97
|
3.3
|
73.9
|
1.0
|
CHA
|
C:HEM402
|
3.3
|
67.4
|
1.0
|
CHD
|
C:HEM402
|
3.4
|
69.0
|
1.0
|
CHB
|
C:HEM402
|
3.5
|
67.2
|
1.0
|
CHC
|
C:HEM402
|
3.5
|
68.8
|
1.0
|
C2D
|
C:HEM402
|
4.2
|
69.4
|
1.0
|
C3D
|
C:HEM402
|
4.2
|
68.6
|
1.0
|
C2A
|
C:HEM402
|
4.2
|
66.0
|
1.0
|
C3A
|
C:HEM402
|
4.2
|
65.5
|
1.0
|
ND1
|
C:HIS97
|
4.2
|
74.9
|
1.0
|
C3C
|
C:HEM402
|
4.3
|
68.9
|
1.0
|
ND1
|
C:HIS196
|
4.3
|
66.8
|
1.0
|
C2C
|
C:HEM402
|
4.3
|
68.9
|
1.0
|
CG
|
C:HIS196
|
4.3
|
66.2
|
1.0
|
C2B
|
C:HEM402
|
4.3
|
65.9
|
1.0
|
CG
|
C:HIS97
|
4.4
|
74.3
|
1.0
|
C3B
|
C:HEM402
|
4.4
|
67.4
|
1.0
|
|
Iron binding site 3 out
of 5 in 6haw
Go back to
Iron Binding Sites List in 6haw
Iron binding site 3 out
of 5 in the Crystal Structure of Bovine Cytochrome BC1 in Complex with 2-Pyrazolyl Quinolone Inhibitor WDH2G7
Mono view
Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 3 of Crystal Structure of Bovine Cytochrome BC1 in Complex with 2-Pyrazolyl Quinolone Inhibitor WDH2G7 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Fe501
b:0.6
occ:1.00
|
FE
|
D:HEC501
|
0.0
|
0.6
|
1.0
|
NE2
|
D:HIS41
|
2.1
|
0.5
|
1.0
|
NA
|
D:HEC501
|
2.1
|
0.5
|
1.0
|
NB
|
D:HEC501
|
2.1
|
0.2
|
1.0
|
NC
|
D:HEC501
|
2.1
|
0.9
|
1.0
|
ND
|
D:HEC501
|
2.1
|
0.9
|
1.0
|
SD
|
D:MET160
|
2.4
|
0.2
|
1.0
|
CE1
|
D:HIS41
|
2.8
|
0.6
|
1.0
|
C4A
|
D:HEC501
|
3.1
|
0.3
|
1.0
|
C1B
|
D:HEC501
|
3.1
|
0.2
|
1.0
|
C4B
|
D:HEC501
|
3.1
|
0.9
|
1.0
|
C4C
|
D:HEC501
|
3.1
|
0.6
|
1.0
|
C1A
|
D:HEC501
|
3.1
|
0.5
|
1.0
|
C1C
|
D:HEC501
|
3.1
|
0.2
|
1.0
|
C1D
|
D:HEC501
|
3.1
|
0.6
|
1.0
|
C4D
|
D:HEC501
|
3.1
|
0.3
|
1.0
|
CD2
|
D:HIS41
|
3.2
|
0.5
|
1.0
|
CHB
|
D:HEC501
|
3.4
|
0.5
|
1.0
|
CHC
|
D:HEC501
|
3.5
|
0.3
|
1.0
|
CHD
|
D:HEC501
|
3.5
|
0.0
|
1.0
|
CHA
|
D:HEC501
|
3.5
|
0.9
|
1.0
|
CE
|
D:MET160
|
3.7
|
0.8
|
1.0
|
CG
|
D:MET160
|
3.8
|
0.8
|
1.0
|
ND1
|
D:HIS41
|
4.0
|
0.3
|
1.0
|
CG
|
D:HIS41
|
4.3
|
0.2
|
1.0
|
C3B
|
D:HEC501
|
4.4
|
0.9
|
1.0
|
C3C
|
D:HEC501
|
4.4
|
0.6
|
1.0
|
C3A
|
D:HEC501
|
4.4
|
0.2
|
1.0
|
C2A
|
D:HEC501
|
4.5
|
0.8
|
1.0
|
C2B
|
D:HEC501
|
4.5
|
0.1
|
1.0
|
C2C
|
D:HEC501
|
4.5
|
0.7
|
1.0
|
C2D
|
D:HEC501
|
4.5
|
0.0
|
1.0
|
C3D
|
D:HEC501
|
4.5
|
0.5
|
1.0
|
CB
|
D:MET160
|
4.5
|
0.4
|
1.0
|
|
Iron binding site 4 out
of 5 in 6haw
Go back to
Iron Binding Sites List in 6haw
Iron binding site 4 out
of 5 in the Crystal Structure of Bovine Cytochrome BC1 in Complex with 2-Pyrazolyl Quinolone Inhibitor WDH2G7
Mono view
Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 4 of Crystal Structure of Bovine Cytochrome BC1 in Complex with 2-Pyrazolyl Quinolone Inhibitor WDH2G7 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Fe201
b:0.8
occ:1.00
|
FE1
|
E:FES201
|
0.0
|
0.8
|
1.0
|
S2
|
E:FES201
|
2.2
|
0.1
|
1.0
|
S1
|
E:FES201
|
2.2
|
0.6
|
1.0
|
SG
|
E:CYS158
|
2.7
|
0.5
|
1.0
|
FE2
|
E:FES201
|
3.1
|
0.8
|
1.0
|
SG
|
E:CYS139
|
3.1
|
0.7
|
1.0
|
CB
|
E:CYS160
|
3.5
|
0.2
|
1.0
|
SG
|
E:CYS144
|
3.8
|
0.9
|
1.0
|
CB
|
E:CYS158
|
3.8
|
0.7
|
1.0
|
CB
|
E:CYS139
|
3.9
|
0.7
|
1.0
|
N
|
E:HIS161
|
4.1
|
0.7
|
1.0
|
SG
|
E:CYS160
|
4.3
|
0.8
|
1.0
|
CB
|
E:HIS161
|
4.4
|
0.9
|
1.0
|
CB
|
E:CYS144
|
4.4
|
0.6
|
1.0
|
ND1
|
E:HIS161
|
4.4
|
0.0
|
1.0
|
CA
|
E:CYS160
|
4.5
|
0.2
|
1.0
|
C
|
E:CYS160
|
4.7
|
0.0
|
1.0
|
N
|
E:CYS160
|
4.8
|
0.2
|
1.0
|
OG
|
E:SER163
|
4.8
|
0.2
|
1.0
|
CG
|
E:HIS161
|
4.8
|
0.5
|
1.0
|
CA
|
E:HIS161
|
4.8
|
0.6
|
1.0
|
CB
|
E:SER163
|
4.9
|
0.9
|
1.0
|
|
Iron binding site 5 out
of 5 in 6haw
Go back to
Iron Binding Sites List in 6haw
Iron binding site 5 out
of 5 in the Crystal Structure of Bovine Cytochrome BC1 in Complex with 2-Pyrazolyl Quinolone Inhibitor WDH2G7
Mono view
Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 5 of Crystal Structure of Bovine Cytochrome BC1 in Complex with 2-Pyrazolyl Quinolone Inhibitor WDH2G7 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Fe201
b:0.8
occ:1.00
|
FE2
|
E:FES201
|
0.0
|
0.8
|
1.0
|
S1
|
E:FES201
|
2.2
|
0.6
|
1.0
|
S2
|
E:FES201
|
2.2
|
0.1
|
1.0
|
ND1
|
E:HIS141
|
2.9
|
0.8
|
1.0
|
CG
|
E:HIS161
|
3.1
|
0.5
|
1.0
|
CB
|
E:HIS161
|
3.1
|
0.9
|
1.0
|
FE1
|
E:FES201
|
3.1
|
0.8
|
1.0
|
CB
|
E:HIS141
|
3.2
|
0.4
|
1.0
|
ND1
|
E:HIS161
|
3.2
|
0.0
|
1.0
|
CG
|
E:HIS141
|
3.4
|
0.4
|
1.0
|
CD2
|
E:HIS161
|
3.8
|
0.6
|
1.0
|
CE1
|
E:HIS161
|
4.0
|
0.3
|
1.0
|
CE1
|
E:HIS141
|
4.0
|
0.5
|
1.0
|
CG
|
E:PRO175
|
4.2
|
0.1
|
1.0
|
N
|
E:LEU142
|
4.2
|
0.7
|
1.0
|
NE2
|
E:HIS161
|
4.3
|
0.5
|
1.0
|
CA
|
E:HIS161
|
4.4
|
0.6
|
1.0
|
CA
|
E:HIS141
|
4.5
|
0.3
|
1.0
|
N
|
E:HIS161
|
4.6
|
0.7
|
1.0
|
CD2
|
E:HIS141
|
4.6
|
0.1
|
1.0
|
CB
|
E:LEU142
|
4.6
|
0.2
|
1.0
|
C
|
E:HIS141
|
4.7
|
0.9
|
1.0
|
CG
|
E:LEU142
|
4.7
|
0.8
|
1.0
|
CB
|
E:PRO175
|
4.8
|
0.0
|
1.0
|
NE2
|
E:HIS141
|
4.8
|
0.1
|
1.0
|
OG
|
E:SER163
|
4.9
|
0.2
|
1.0
|
CD1
|
E:LEU142
|
5.0
|
0.1
|
1.0
|
|
Reference:
W.David Hong,
S.C.Leung,
K.Amporndanai,
J.Davies,
R.S.Priestley,
G.L.Nixon,
N.G.Berry,
S.Samar Hasnain,
S.Antonyuk,
S.A.Ward,
G.A.Biagini,
P.M.O'neill.
Potent Antimalarial 2-Pyrazolyl QUINOLONEBC1(Qi) Inhibitors with Improved Drug-Like Properties. Acs Med Chem Lett V. 9 1205 2018.
ISSN: ISSN 1948-5875
PubMed: 30613327
DOI: 10.1021/ACSMEDCHEMLETT.8B00371
Page generated: Tue Aug 6 21:22:45 2024
|