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Iron in PDB 3jx3: Structure of Rat Neuronal Nitric Oxide Synthase D597N/M336V Mutant Heme Domain in Complex with N1-{(3'R,4'R)-4'-[(6"-Amino-4"- Methylpyridin-2"-Yl)Methyl]Pyrrolidin-3'-Yl}-N2-(3'-Fluorophenethyl) Ethane-1,2-Diamine

Enzymatic activity of Structure of Rat Neuronal Nitric Oxide Synthase D597N/M336V Mutant Heme Domain in Complex with N1-{(3'R,4'R)-4'-[(6"-Amino-4"- Methylpyridin-2"-Yl)Methyl]Pyrrolidin-3'-Yl}-N2-(3'-Fluorophenethyl) Ethane-1,2-Diamine

All present enzymatic activity of Structure of Rat Neuronal Nitric Oxide Synthase D597N/M336V Mutant Heme Domain in Complex with N1-{(3'R,4'R)-4'-[(6"-Amino-4"- Methylpyridin-2"-Yl)Methyl]Pyrrolidin-3'-Yl}-N2-(3'-Fluorophenethyl) Ethane-1,2-Diamine:
1.14.13.39;

Protein crystallography data

The structure of Structure of Rat Neuronal Nitric Oxide Synthase D597N/M336V Mutant Heme Domain in Complex with N1-{(3'R,4'R)-4'-[(6"-Amino-4"- Methylpyridin-2"-Yl)Methyl]Pyrrolidin-3'-Yl}-N2-(3'-Fluorophenethyl) Ethane-1,2-Diamine, PDB code: 3jx3 was solved by S.L.Delker, H.Li, T.L.Poulos, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 38.95 / 1.95
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 51.840, 110.900, 164.130, 90.00, 90.00, 90.00
R / Rfree (%) 18.2 / 22.3

Other elements in 3jx3:

The structure of Structure of Rat Neuronal Nitric Oxide Synthase D597N/M336V Mutant Heme Domain in Complex with N1-{(3'R,4'R)-4'-[(6"-Amino-4"- Methylpyridin-2"-Yl)Methyl]Pyrrolidin-3'-Yl}-N2-(3'-Fluorophenethyl) Ethane-1,2-Diamine also contains other interesting chemical elements:

Fluorine (F) 2 atoms
Zinc (Zn) 1 atom

Iron Binding Sites:

The binding sites of Iron atom in the Structure of Rat Neuronal Nitric Oxide Synthase D597N/M336V Mutant Heme Domain in Complex with N1-{(3'R,4'R)-4'-[(6"-Amino-4"- Methylpyridin-2"-Yl)Methyl]Pyrrolidin-3'-Yl}-N2-(3'-Fluorophenethyl) Ethane-1,2-Diamine (pdb code 3jx3). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 2 binding sites of Iron where determined in the Structure of Rat Neuronal Nitric Oxide Synthase D597N/M336V Mutant Heme Domain in Complex with N1-{(3'R,4'R)-4'-[(6"-Amino-4"- Methylpyridin-2"-Yl)Methyl]Pyrrolidin-3'-Yl}-N2-(3'-Fluorophenethyl) Ethane-1,2-Diamine, PDB code: 3jx3:
Jump to Iron binding site number: 1; 2;

Iron binding site 1 out of 2 in 3jx3

Go back to Iron Binding Sites List in 3jx3
Iron binding site 1 out of 2 in the Structure of Rat Neuronal Nitric Oxide Synthase D597N/M336V Mutant Heme Domain in Complex with N1-{(3'R,4'R)-4'-[(6"-Amino-4"- Methylpyridin-2"-Yl)Methyl]Pyrrolidin-3'-Yl}-N2-(3'-Fluorophenethyl) Ethane-1,2-Diamine


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Structure of Rat Neuronal Nitric Oxide Synthase D597N/M336V Mutant Heme Domain in Complex with N1-{(3'R,4'R)-4'-[(6"-Amino-4"- Methylpyridin-2"-Yl)Methyl]Pyrrolidin-3'-Yl}-N2-(3'-Fluorophenethyl) Ethane-1,2-Diamine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe750

b:34.9
occ:1.00
 FE A:HEM750 0.0 34.9 1.0
ND A:HEM750 2.1 33.9 1.0
NB A:HEM750 2.1 36.0 1.0
NC A:HEM750 2.1 32.3 1.0
NA A:HEM750 2.1 37.1 1.0
SG A:CYS415 2.4 35.1 1.0
C1D A:HEM750 3.0 34.6 1.0
C1B A:HEM750 3.1 39.1 1.0
C4C A:HEM750 3.1 31.9 1.0
C4D A:HEM750 3.1 36.7 1.0
C4A A:HEM750 3.1 37.0 1.0
C4B A:HEM750 3.1 37.9 1.0
C1C A:HEM750 3.1 34.5 1.0
C1A A:HEM750 3.2 35.7 1.0
CHD A:HEM750 3.4 33.5 1.0
CB A:CYS415 3.4 33.7 1.0
CHB A:HEM750 3.4 37.0 1.0
CHC A:HEM750 3.5 36.5 1.0
CHA A:HEM750 3.5 35.1 1.0
CA A:CYS415 4.1 33.2 1.0
C12 A:JI5800 4.1 54.9 1.0
C13 A:JI5800 4.1 56.0 1.0
C2D A:HEM750 4.3 34.4 1.0
C3D A:HEM750 4.3 36.3 1.0
C2B A:HEM750 4.3 39.7 1.0
C11 A:JI5800 4.3 55.8 1.0
C3B A:HEM750 4.3 41.6 1.0
C3C A:HEM750 4.3 34.7 1.0
C3A A:HEM750 4.3 36.7 1.0
C2A A:HEM750 4.3 38.1 1.0
C2C A:HEM750 4.3 34.5 1.0
C14 A:JI5800 4.4 56.3 1.0
NE1 A:TRP409 4.4 35.4 1.0
C16 A:JI5800 4.5 56.3 1.0
C15 A:JI5800 4.6 55.3 1.0
F13 A:JI5800 4.6 56.8 1.0
C A:CYS415 4.8 33.2 1.0
N A:GLY417 4.8 34.9 1.0
N A:VAL416 4.9 33.2 1.0
C4 A:JI5800 5.0 55.8 1.0

Iron binding site 2 out of 2 in 3jx3

Go back to Iron Binding Sites List in 3jx3
Iron binding site 2 out of 2 in the Structure of Rat Neuronal Nitric Oxide Synthase D597N/M336V Mutant Heme Domain in Complex with N1-{(3'R,4'R)-4'-[(6"-Amino-4"- Methylpyridin-2"-Yl)Methyl]Pyrrolidin-3'-Yl}-N2-(3'-Fluorophenethyl) Ethane-1,2-Diamine


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Structure of Rat Neuronal Nitric Oxide Synthase D597N/M336V Mutant Heme Domain in Complex with N1-{(3'R,4'R)-4'-[(6"-Amino-4"- Methylpyridin-2"-Yl)Methyl]Pyrrolidin-3'-Yl}-N2-(3'-Fluorophenethyl) Ethane-1,2-Diamine within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe750

b:34.4
occ:1.00
 FE B:HEM750 0.0 34.4 1.0
NB B:HEM750 2.0 33.2 1.0
NA B:HEM750 2.0 34.5 1.0
ND B:HEM750 2.1 33.7 1.0
NC B:HEM750 2.1 35.6 1.0
SG B:CYS415 2.4 32.9 1.0
C1A B:HEM750 3.0 38.4 1.0
C1B B:HEM750 3.0 37.3 1.0
C4D B:HEM750 3.1 35.2 1.0
C4B B:HEM750 3.1 37.4 1.0
C1D B:HEM750 3.1 34.8 1.0
C4A B:HEM750 3.1 34.6 1.0
C4C B:HEM750 3.1 33.7 1.0
C1C B:HEM750 3.1 35.6 1.0
CB B:CYS415 3.2 30.1 1.0
CHA B:HEM750 3.4 35.5 1.0
CHD B:HEM750 3.4 34.9 1.0
CHB B:HEM750 3.5 36.2 1.0
CHC B:HEM750 3.5 36.4 1.0
C12 B:JI5800 4.1 51.0 1.0
CA B:CYS415 4.1 30.3 1.0
C13 B:JI5800 4.2 52.1 1.0
C11 B:JI5800 4.2 50.4 1.0
C2A B:HEM750 4.3 39.2 1.0
C2B B:HEM750 4.3 38.2 1.0
C3B B:HEM750 4.3 37.4 1.0
C3A B:HEM750 4.3 36.9 1.0
C3D B:HEM750 4.3 36.9 1.0
C3C B:HEM750 4.3 31.6 1.0
C2D B:HEM750 4.3 35.5 1.0
C2C B:HEM750 4.3 34.2 1.0
C14 B:JI5800 4.4 51.1 1.0
NE1 B:TRP409 4.4 30.0 1.0
C16 B:JI5800 4.4 49.2 1.0
C15 B:JI5800 4.5 50.6 1.0
F13 B:JI5800 4.7 51.0 1.0
N B:GLY417 4.8 35.1 1.0
C B:CYS415 4.8 31.6 1.0
C4 B:JI5800 4.9 48.6 1.0
N B:VAL416 4.9 31.9 1.0

Reference:

S.L.Delker, H.Ji, H.Li, J.Jamal, J.Fang, F.Xue, R.B.Silverman, T.L.Poulos. Unexpected Binding Modes of Nitric Oxide Synthase Inhibitors Effective in the Prevention of A Cerebral Palsy Phenotype in An Animal Model. J.Am.Chem.Soc. V. 132 5437 2010.
ISSN: ISSN 0002-7863
PubMed: 20337441
DOI: 10.1021/JA910228A
Page generated: Sun Aug 4 13:41:03 2024

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