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Magnesium in PDB 2c16: 5-(4-Carboxy-2-Oxo-Butane-1-Sulfinyl)-4-Oxo-Pentanoic Acid Acid Bound to Porphobilinogen Synthase From Pseudomonas Aeruginosa

Enzymatic activity of 5-(4-Carboxy-2-Oxo-Butane-1-Sulfinyl)-4-Oxo-Pentanoic Acid Acid Bound to Porphobilinogen Synthase From Pseudomonas Aeruginosa

All present enzymatic activity of 5-(4-Carboxy-2-Oxo-Butane-1-Sulfinyl)-4-Oxo-Pentanoic Acid Acid Bound to Porphobilinogen Synthase From Pseudomonas Aeruginosa:
4.2.1.24;

Protein crystallography data

The structure of 5-(4-Carboxy-2-Oxo-Butane-1-Sulfinyl)-4-Oxo-Pentanoic Acid Acid Bound to Porphobilinogen Synthase From Pseudomonas Aeruginosa, PDB code: 2c16 was solved by F.Frere, M.Nentwich, S.Gacond, D.W.Heinz, R.Neier, N.Frankenberg-Dinkel, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 89.80 / 2.02
Space group P 4 21 2
Cell size a, b, c (Å), α, β, γ (°) 125.513, 125.513, 86.765, 90.00, 90.00, 90.00
R / Rfree (%) 14.3 / 18.3

Other elements in 2c16:

The structure of 5-(4-Carboxy-2-Oxo-Butane-1-Sulfinyl)-4-Oxo-Pentanoic Acid Acid Bound to Porphobilinogen Synthase From Pseudomonas Aeruginosa also contains other interesting chemical elements:

Chlorine (Cl) 1 atom

Magnesium Binding Sites:

The binding sites of Magnesium atom in the 5-(4-Carboxy-2-Oxo-Butane-1-Sulfinyl)-4-Oxo-Pentanoic Acid Acid Bound to Porphobilinogen Synthase From Pseudomonas Aeruginosa (pdb code 2c16). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the 5-(4-Carboxy-2-Oxo-Butane-1-Sulfinyl)-4-Oxo-Pentanoic Acid Acid Bound to Porphobilinogen Synthase From Pseudomonas Aeruginosa, PDB code: 2c16:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 2c16

Go back to Magnesium Binding Sites List in 2c16
Magnesium binding site 1 out of 2 in the 5-(4-Carboxy-2-Oxo-Butane-1-Sulfinyl)-4-Oxo-Pentanoic Acid Acid Bound to Porphobilinogen Synthase From Pseudomonas Aeruginosa


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of 5-(4-Carboxy-2-Oxo-Butane-1-Sulfinyl)-4-Oxo-Pentanoic Acid Acid Bound to Porphobilinogen Synthase From Pseudomonas Aeruginosa within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg1336

b:11.0
occ:1.00
 OE1 A:GLU245 2.0 9.2 1.0
O A:HOH2280 2.0 12.2 1.0
O A:HOH2234 2.1 7.8 1.0
O A:HOH2277 2.1 6.2 1.0
O A:HOH2279 2.1 9.2 1.0
O A:HOH2236 2.2 8.5 1.0
CD A:GLU245 3.1 11.0 1.0
OE2 A:GLU245 3.4 8.9 1.0
NH1 A:ARG181 3.8 10.3 1.0
OD1 A:ASP249 3.8 10.9 1.0
O A:HOH2233 4.0 9.1 1.0
O A:HOH2284 4.1 10.7 1.0
O A:HOH2283 4.2 8.2 1.0
OD2 A:ASP249 4.3 11.3 1.0
O A:MET178 4.3 8.5 1.0
CG A:GLU245 4.4 8.9 1.0
CG A:ASP249 4.4 9.7 1.0
OD1 A:ASP179 4.5 9.3 1.0
O A:SER203 4.5 8.7 1.0
O A:GLU245 4.5 8.2 1.0
O B:HOH2031 4.6 11.9 1.0
CB A:GLU245 4.6 9.7 1.0
CA A:ASP179 4.7 8.6 1.0
CA A:GLU245 4.7 9.3 1.0
SD A:MET177 4.9 11.3 1.0
C A:MET178 5.0 8.8 1.0

Magnesium binding site 2 out of 2 in 2c16

Go back to Magnesium Binding Sites List in 2c16
Magnesium binding site 2 out of 2 in the 5-(4-Carboxy-2-Oxo-Butane-1-Sulfinyl)-4-Oxo-Pentanoic Acid Acid Bound to Porphobilinogen Synthase From Pseudomonas Aeruginosa


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of 5-(4-Carboxy-2-Oxo-Butane-1-Sulfinyl)-4-Oxo-Pentanoic Acid Acid Bound to Porphobilinogen Synthase From Pseudomonas Aeruginosa within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg1336

b:14.8
occ:1.00
 OE1 B:GLU245 2.0 15.8 1.0
O B:HOH2267 2.1 15.8 1.0
O B:HOH2264 2.1 11.1 1.0
O B:HOH2225 2.1 9.3 1.0
O B:HOH2266 2.1 10.8 1.0
O B:HOH2226 2.3 11.6 1.0
CD B:GLU245 3.1 14.2 1.0
OE2 B:GLU245 3.5 14.0 1.0
NH1 B:ARG181 3.7 12.6 1.0
OD1 B:ASP249 3.8 11.7 1.0
O B:HOH2224 4.1 10.6 1.0
O B:HOH2270 4.1 11.1 1.0
OD2 B:ASP249 4.2 11.5 1.0
O B:HOH2271 4.2 14.6 1.0
O B:MET178 4.3 10.6 1.0
CG B:ASP249 4.4 10.9 1.0
CG B:GLU245 4.4 12.4 1.0
O B:SER203 4.5 9.5 1.0
O B:GLU245 4.6 9.7 1.0
OD1 B:ASP179 4.6 10.0 1.0
CB B:GLU245 4.6 11.0 1.0
CA B:ASP179 4.7 11.7 1.0
CA B:GLU245 4.7 10.5 1.0
O A:HOH2028 4.8 14.7 1.0
SD B:MET177 4.9 12.6 1.0
CZ B:ARG181 5.0 12.8 1.0
CE B:MET177 5.0 9.6 1.0

Reference:

F.Frere, M.Nentwich, S.Gacond, D.W.Heinz, R.Neier, N.Frankenberg-Dinkel. Probing the Active Site of Pseudomonas Aeruginosa Porphobilinogen Synthase Using Newly Developed Inhibitors. Biochemistry V. 45 8243 2006.
ISSN: ISSN 0006-2960
PubMed: 16819823
DOI: 10.1021/BI052611F
Page generated: Sun Aug 10 10:11:33 2025

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