Iron in PDB 7tsm: Structure of Human Endothelial Nitric Oxide Synthase Heme Domain in Complex with 4-Methyl-6-(3-(4-Methylpiperazin-1-Yl)Prop-1-Yn-1-Yl) Pyridin-2-Amine Bishydrochloride
Enzymatic activity of Structure of Human Endothelial Nitric Oxide Synthase Heme Domain in Complex with 4-Methyl-6-(3-(4-Methylpiperazin-1-Yl)Prop-1-Yn-1-Yl) Pyridin-2-Amine Bishydrochloride
All present enzymatic activity of Structure of Human Endothelial Nitric Oxide Synthase Heme Domain in Complex with 4-Methyl-6-(3-(4-Methylpiperazin-1-Yl)Prop-1-Yn-1-Yl) Pyridin-2-Amine Bishydrochloride:
1.14.13.39;
Protein crystallography data
The structure of Structure of Human Endothelial Nitric Oxide Synthase Heme Domain in Complex with 4-Methyl-6-(3-(4-Methylpiperazin-1-Yl)Prop-1-Yn-1-Yl) Pyridin-2-Amine Bishydrochloride, PDB code: 7tsm
was solved by
H.Li,
T.L.Poulos,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
39.10 /
1.85
|
Space group
|
P 1 21 1
|
Cell size a, b, c (Å), α, β, γ (°)
|
59.678,
153.119,
108.794,
90,
90.66,
90
|
R / Rfree (%)
|
19.9 /
23.7
|
Other elements in 7tsm:
The structure of Structure of Human Endothelial Nitric Oxide Synthase Heme Domain in Complex with 4-Methyl-6-(3-(4-Methylpiperazin-1-Yl)Prop-1-Yn-1-Yl) Pyridin-2-Amine Bishydrochloride also contains other interesting chemical elements:
Iron Binding Sites:
The binding sites of Iron atom in the Structure of Human Endothelial Nitric Oxide Synthase Heme Domain in Complex with 4-Methyl-6-(3-(4-Methylpiperazin-1-Yl)Prop-1-Yn-1-Yl) Pyridin-2-Amine Bishydrochloride
(pdb code 7tsm). This binding sites where shown within
5.0 Angstroms radius around Iron atom.
In total 4 binding sites of Iron where determined in the
Structure of Human Endothelial Nitric Oxide Synthase Heme Domain in Complex with 4-Methyl-6-(3-(4-Methylpiperazin-1-Yl)Prop-1-Yn-1-Yl) Pyridin-2-Amine Bishydrochloride, PDB code: 7tsm:
Jump to Iron binding site number:
1;
2;
3;
4;
Iron binding site 1 out
of 4 in 7tsm
Go back to
Iron Binding Sites List in 7tsm
Iron binding site 1 out
of 4 in the Structure of Human Endothelial Nitric Oxide Synthase Heme Domain in Complex with 4-Methyl-6-(3-(4-Methylpiperazin-1-Yl)Prop-1-Yn-1-Yl) Pyridin-2-Amine Bishydrochloride
Mono view
Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 1 of Structure of Human Endothelial Nitric Oxide Synthase Heme Domain in Complex with 4-Methyl-6-(3-(4-Methylpiperazin-1-Yl)Prop-1-Yn-1-Yl) Pyridin-2-Amine Bishydrochloride within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe501
b:46.9
occ:1.00
|
FE
|
A:HEM501
|
0.0
|
46.9
|
1.0
|
ND
|
A:HEM501
|
2.1
|
50.6
|
1.0
|
NA
|
A:HEM501
|
2.1
|
49.9
|
1.0
|
NB
|
A:HEM501
|
2.1
|
46.3
|
1.0
|
NC
|
A:HEM501
|
2.1
|
53.4
|
1.0
|
SG
|
A:CYS184
|
2.3
|
44.2
|
1.0
|
C4D
|
A:HEM501
|
3.1
|
46.7
|
1.0
|
C1A
|
A:HEM501
|
3.1
|
49.8
|
1.0
|
C1C
|
A:HEM501
|
3.1
|
56.2
|
1.0
|
C4B
|
A:HEM501
|
3.1
|
50.9
|
1.0
|
C1B
|
A:HEM501
|
3.1
|
50.9
|
1.0
|
C1D
|
A:HEM501
|
3.1
|
54.6
|
1.0
|
C4C
|
A:HEM501
|
3.1
|
59.0
|
1.0
|
C4A
|
A:HEM501
|
3.1
|
50.8
|
1.0
|
CHA
|
A:HEM501
|
3.4
|
44.5
|
1.0
|
CHC
|
A:HEM501
|
3.4
|
49.8
|
1.0
|
CB
|
A:CYS184
|
3.5
|
46.1
|
1.0
|
CHD
|
A:HEM501
|
3.5
|
56.5
|
1.0
|
CHB
|
A:HEM501
|
3.5
|
44.9
|
1.0
|
C04
|
A:K90503
|
3.8
|
51.2
|
1.0
|
C03
|
A:K90503
|
3.9
|
46.9
|
1.0
|
C07
|
A:K90503
|
4.0
|
48.3
|
1.0
|
C05
|
A:K90503
|
4.1
|
60.9
|
1.0
|
CA
|
A:CYS184
|
4.2
|
40.5
|
1.0
|
C3D
|
A:HEM501
|
4.3
|
56.3
|
1.0
|
C2D
|
A:HEM501
|
4.3
|
56.4
|
1.0
|
C2B
|
A:HEM501
|
4.3
|
46.1
|
1.0
|
C3B
|
A:HEM501
|
4.3
|
51.9
|
1.0
|
C2A
|
A:HEM501
|
4.3
|
51.3
|
1.0
|
C2C
|
A:HEM501
|
4.3
|
52.5
|
1.0
|
C3C
|
A:HEM501
|
4.3
|
57.4
|
1.0
|
C3A
|
A:HEM501
|
4.3
|
45.9
|
1.0
|
C02
|
A:K90503
|
4.4
|
50.0
|
1.0
|
NE1
|
A:TRP178
|
4.5
|
51.1
|
1.0
|
C06
|
A:K90503
|
4.6
|
57.3
|
1.0
|
N01
|
A:K90503
|
4.7
|
43.1
|
1.0
|
C
|
A:CYS184
|
5.0
|
42.2
|
1.0
|
N
|
A:GLY186
|
5.0
|
41.6
|
1.0
|
|
Iron binding site 2 out
of 4 in 7tsm
Go back to
Iron Binding Sites List in 7tsm
Iron binding site 2 out
of 4 in the Structure of Human Endothelial Nitric Oxide Synthase Heme Domain in Complex with 4-Methyl-6-(3-(4-Methylpiperazin-1-Yl)Prop-1-Yn-1-Yl) Pyridin-2-Amine Bishydrochloride
Mono view
Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 2 of Structure of Human Endothelial Nitric Oxide Synthase Heme Domain in Complex with 4-Methyl-6-(3-(4-Methylpiperazin-1-Yl)Prop-1-Yn-1-Yl) Pyridin-2-Amine Bishydrochloride within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Fe501
b:32.3
occ:1.00
|
FE
|
B:HEM501
|
0.0
|
32.3
|
1.0
|
NA
|
B:HEM501
|
2.1
|
31.8
|
1.0
|
ND
|
B:HEM501
|
2.1
|
29.1
|
1.0
|
NC
|
B:HEM501
|
2.1
|
31.2
|
1.0
|
NB
|
B:HEM501
|
2.1
|
34.2
|
1.0
|
SG
|
B:CYS184
|
2.4
|
30.2
|
1.0
|
C1A
|
B:HEM501
|
3.1
|
30.2
|
1.0
|
C4D
|
B:HEM501
|
3.1
|
38.8
|
1.0
|
C1D
|
B:HEM501
|
3.1
|
31.0
|
1.0
|
C1C
|
B:HEM501
|
3.1
|
32.4
|
1.0
|
C4A
|
B:HEM501
|
3.1
|
37.1
|
1.0
|
C4C
|
B:HEM501
|
3.1
|
31.8
|
1.0
|
C1B
|
B:HEM501
|
3.1
|
32.8
|
1.0
|
C4B
|
B:HEM501
|
3.1
|
37.2
|
1.0
|
CB
|
B:CYS184
|
3.4
|
29.7
|
1.0
|
CHB
|
B:HEM501
|
3.4
|
28.6
|
1.0
|
CHA
|
B:HEM501
|
3.4
|
28.6
|
1.0
|
CHD
|
B:HEM501
|
3.5
|
31.2
|
1.0
|
CHC
|
B:HEM501
|
3.5
|
31.8
|
1.0
|
C04
|
B:K90503
|
4.0
|
33.6
|
1.0
|
C03
|
B:K90503
|
4.0
|
34.6
|
1.0
|
CA
|
B:CYS184
|
4.1
|
29.2
|
1.0
|
C07
|
B:K90503
|
4.3
|
30.2
|
1.0
|
C2D
|
B:HEM501
|
4.3
|
32.9
|
1.0
|
C3D
|
B:HEM501
|
4.3
|
32.6
|
1.0
|
C2C
|
B:HEM501
|
4.3
|
31.2
|
1.0
|
C2A
|
B:HEM501
|
4.3
|
34.8
|
1.0
|
C2B
|
B:HEM501
|
4.3
|
32.4
|
1.0
|
C3A
|
B:HEM501
|
4.3
|
33.7
|
1.0
|
C3C
|
B:HEM501
|
4.3
|
30.1
|
1.0
|
NE1
|
B:TRP178
|
4.3
|
32.6
|
1.0
|
C3B
|
B:HEM501
|
4.3
|
31.3
|
1.0
|
C05
|
B:K90503
|
4.4
|
32.5
|
1.0
|
C02
|
B:K90503
|
4.4
|
32.2
|
1.0
|
N01
|
B:K90503
|
4.8
|
33.1
|
1.0
|
C06
|
B:K90503
|
4.8
|
42.2
|
1.0
|
N
|
B:GLY186
|
4.8
|
36.9
|
1.0
|
C
|
B:CYS184
|
4.9
|
31.4
|
1.0
|
CD1
|
B:TRP178
|
5.0
|
30.0
|
1.0
|
|
Iron binding site 3 out
of 4 in 7tsm
Go back to
Iron Binding Sites List in 7tsm
Iron binding site 3 out
of 4 in the Structure of Human Endothelial Nitric Oxide Synthase Heme Domain in Complex with 4-Methyl-6-(3-(4-Methylpiperazin-1-Yl)Prop-1-Yn-1-Yl) Pyridin-2-Amine Bishydrochloride
Mono view
Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 3 of Structure of Human Endothelial Nitric Oxide Synthase Heme Domain in Complex with 4-Methyl-6-(3-(4-Methylpiperazin-1-Yl)Prop-1-Yn-1-Yl) Pyridin-2-Amine Bishydrochloride within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Fe501
b:40.7
occ:1.00
|
FE
|
C:HEM501
|
0.0
|
40.7
|
1.0
|
NC
|
C:HEM501
|
2.1
|
44.1
|
1.0
|
NB
|
C:HEM501
|
2.1
|
37.9
|
1.0
|
ND
|
C:HEM501
|
2.1
|
43.9
|
1.0
|
NA
|
C:HEM501
|
2.1
|
42.8
|
1.0
|
SG
|
C:CYS184
|
2.3
|
42.3
|
1.0
|
C1C
|
C:HEM501
|
3.0
|
43.1
|
1.0
|
C4B
|
C:HEM501
|
3.1
|
42.7
|
1.0
|
C1B
|
C:HEM501
|
3.1
|
39.8
|
1.0
|
C4C
|
C:HEM501
|
3.1
|
42.2
|
1.0
|
C1D
|
C:HEM501
|
3.1
|
43.7
|
1.0
|
C4D
|
C:HEM501
|
3.1
|
44.8
|
1.0
|
C4A
|
C:HEM501
|
3.1
|
41.7
|
1.0
|
C1A
|
C:HEM501
|
3.1
|
41.6
|
1.0
|
CHC
|
C:HEM501
|
3.4
|
40.6
|
1.0
|
CB
|
C:CYS184
|
3.4
|
35.2
|
1.0
|
CHD
|
C:HEM501
|
3.5
|
41.2
|
1.0
|
CHB
|
C:HEM501
|
3.5
|
36.6
|
1.0
|
CHA
|
C:HEM501
|
3.5
|
35.1
|
1.0
|
C04
|
C:K90503
|
3.9
|
46.0
|
1.0
|
C03
|
C:K90503
|
3.9
|
45.0
|
1.0
|
CA
|
C:CYS184
|
4.2
|
41.1
|
1.0
|
C07
|
C:K90503
|
4.2
|
48.7
|
1.0
|
C3B
|
C:HEM501
|
4.3
|
42.2
|
1.0
|
C2C
|
C:HEM501
|
4.3
|
43.9
|
1.0
|
C2B
|
C:HEM501
|
4.3
|
37.4
|
1.0
|
C3C
|
C:HEM501
|
4.3
|
38.8
|
1.0
|
C2D
|
C:HEM501
|
4.3
|
38.2
|
1.0
|
C3D
|
C:HEM501
|
4.3
|
45.4
|
1.0
|
C05
|
C:K90503
|
4.3
|
48.2
|
1.0
|
C3A
|
C:HEM501
|
4.4
|
39.5
|
1.0
|
C2A
|
C:HEM501
|
4.4
|
46.5
|
1.0
|
NE1
|
C:TRP178
|
4.4
|
47.6
|
1.0
|
C02
|
C:K90503
|
4.4
|
43.7
|
1.0
|
C06
|
C:K90503
|
4.8
|
52.6
|
1.0
|
N01
|
C:K90503
|
4.8
|
46.7
|
1.0
|
N
|
C:GLY186
|
4.9
|
41.2
|
1.0
|
C
|
C:CYS184
|
4.9
|
35.5
|
1.0
|
CD1
|
C:TRP178
|
5.0
|
47.5
|
1.0
|
|
Iron binding site 4 out
of 4 in 7tsm
Go back to
Iron Binding Sites List in 7tsm
Iron binding site 4 out
of 4 in the Structure of Human Endothelial Nitric Oxide Synthase Heme Domain in Complex with 4-Methyl-6-(3-(4-Methylpiperazin-1-Yl)Prop-1-Yn-1-Yl) Pyridin-2-Amine Bishydrochloride
Mono view
Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 4 of Structure of Human Endothelial Nitric Oxide Synthase Heme Domain in Complex with 4-Methyl-6-(3-(4-Methylpiperazin-1-Yl)Prop-1-Yn-1-Yl) Pyridin-2-Amine Bishydrochloride within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Fe501
b:30.5
occ:1.00
|
FE
|
D:HEM501
|
0.0
|
30.5
|
1.0
|
NA
|
D:HEM501
|
2.1
|
32.7
|
1.0
|
ND
|
D:HEM501
|
2.1
|
30.9
|
1.0
|
NC
|
D:HEM501
|
2.1
|
29.0
|
1.0
|
NB
|
D:HEM501
|
2.1
|
26.3
|
1.0
|
SG
|
D:CYS184
|
2.3
|
31.2
|
1.0
|
C4A
|
D:HEM501
|
3.0
|
34.5
|
1.0
|
C1D
|
D:HEM501
|
3.0
|
30.2
|
1.0
|
C4D
|
D:HEM501
|
3.1
|
28.4
|
1.0
|
C4C
|
D:HEM501
|
3.1
|
32.4
|
1.0
|
C1A
|
D:HEM501
|
3.1
|
33.6
|
1.0
|
C1B
|
D:HEM501
|
3.1
|
32.8
|
1.0
|
C1C
|
D:HEM501
|
3.2
|
33.0
|
1.0
|
C4B
|
D:HEM501
|
3.2
|
30.7
|
1.0
|
CB
|
D:CYS184
|
3.3
|
31.7
|
1.0
|
CHD
|
D:HEM501
|
3.4
|
30.8
|
1.0
|
CHB
|
D:HEM501
|
3.4
|
32.6
|
1.0
|
CHA
|
D:HEM501
|
3.5
|
27.5
|
1.0
|
CHC
|
D:HEM501
|
3.5
|
31.9
|
1.0
|
C04
|
D:K90503
|
3.9
|
29.7
|
1.0
|
C03
|
D:K90503
|
4.0
|
27.7
|
1.0
|
CA
|
D:CYS184
|
4.1
|
26.2
|
1.0
|
C07
|
D:K90503
|
4.2
|
25.7
|
1.0
|
C2D
|
D:HEM501
|
4.3
|
28.6
|
1.0
|
C3A
|
D:HEM501
|
4.3
|
34.1
|
1.0
|
C3D
|
D:HEM501
|
4.3
|
32.4
|
1.0
|
C2A
|
D:HEM501
|
4.3
|
38.2
|
1.0
|
C3C
|
D:HEM501
|
4.3
|
31.0
|
1.0
|
NE1
|
D:TRP178
|
4.3
|
28.9
|
1.0
|
C05
|
D:K90503
|
4.3
|
35.5
|
1.0
|
C2B
|
D:HEM501
|
4.4
|
28.4
|
1.0
|
C2C
|
D:HEM501
|
4.4
|
31.4
|
1.0
|
C3B
|
D:HEM501
|
4.4
|
29.2
|
1.0
|
C02
|
D:K90503
|
4.5
|
31.0
|
1.0
|
N
|
D:GLY186
|
4.7
|
31.0
|
1.0
|
C06
|
D:K90503
|
4.8
|
41.1
|
1.0
|
C
|
D:CYS184
|
4.8
|
30.1
|
1.0
|
N01
|
D:K90503
|
4.9
|
34.0
|
1.0
|
CD1
|
D:TRP178
|
5.0
|
28.4
|
1.0
|
N
|
D:VAL185
|
5.0
|
32.1
|
1.0
|
|
Reference:
D.Vasu,
H.Li,
C.D.Hardy,
T.L.Poulos,
R.B.Silverman.
2-Aminopyridines with A Shortened Amino Sidechain As Potent, Selective, and Highly Permeable Human Neuronal Nitric Oxide Synthase Inhibitors. Bioorg.Med.Chem. V. 69 16878 2022.
ISSN: ESSN 1464-3391
PubMed: 35772285
DOI: 10.1016/J.BMC.2022.116878
Page generated: Fri Aug 9 02:30:08 2024
|