Cobalt in PDB 3ivs: Homocitrate Synthase LYS4

All present enzymatic activity of Homocitrate Synthase LYS4:
2.3.3.14;

The structure of Homocitrate Synthase LYS4, PDB code: 3ivs was solved by S.L.Bulfer, E.M.Scott, J.-F.Couture, L.Pillus, R.C.Trievel, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.45 / 2.24
Space group	P 62
Cell size a, b, c (Å), α, β, γ (°)	135.995, 135.995, 122.124, 90.00, 90.00, 120.00
R / Rfree (%)	19.1 / 22

The structure of Homocitrate Synthase LYS4 also contains other interesting chemical elements:

Magnesium

(Mg)

2 atoms

The binding sites of Cobalt atom in the Homocitrate Synthase LYS4 (pdb code 3ivs). This binding sites where shown within 5.0 Angstroms radius around Cobalt atom.
In total 2 binding sites of Cobalt where determined in the Homocitrate Synthase LYS4, PDB code: 3ivs:
Jump to Cobalt binding site number: 1; 2;

Cobalt binding site 1 out of 2 in the Homocitrate Synthase LYS4


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 1 of Homocitrate Synthase LYS4 within 5.0Å range: probe atom residue distance (Å) B Occ A:Co500 b:46.3 occ:1.00 OE1 A:GLU44 2.0 50.1 1.0 NE2 A:HIS226 2.1 44.7 1.0 NE2 A:HIS224 2.2 48.4 1.0 O A:HOH516 2.4 45.7 1.0 CD2 A:HIS226 3.0 41.7 1.0 CD A:GLU44 3.1 51.2 1.0 CE1 A:HIS226 3.2 44.3 1.0 CD2 A:HIS224 3.2 47.7 1.0 CE1 A:HIS224 3.2 49.8 1.0 OE2 A:GLU44 3.5 52.4 1.0 CG2 A:ILE260 4.1 49.8 1.0 O A:HOH466 4.2 44.9 1.0 CG A:HIS226 4.2 45.7 1.0 ND1 A:HIS226 4.2 45.2 1.0 CG A:HIS224 4.3 50.6 1.0 ND1 A:HIS224 4.3 49.7 1.0 CG A:GLU44 4.4 50.2 1.0 OE1 A:GLN47 4.4 57.6 1.0 CG2 B:ILE325 4.7 62.9 1.0 CB A:GLU44 5.0 49.5 1.0

Cobalt binding site 2 out of 2 in the Homocitrate Synthase LYS4


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 2 of Homocitrate Synthase LYS4 within 5.0Å range: probe atom residue distance (Å) B Occ B:Co500 b:46.3 occ:1.00 OE1 B:GLU44 2.0 50.9 1.0 NE2 B:HIS226 2.1 44.4 1.0 NE2 B:HIS224 2.3 49.4 1.0 O B:HOH528 2.4 42.8 1.0 CD2 B:HIS226 3.0 42.8 1.0 CD B:GLU44 3.1 50.9 1.0 CD2 B:HIS224 3.1 49.2 1.0 CE1 B:HIS226 3.2 44.9 1.0 CE1 B:HIS224 3.3 51.0 1.0 OE2 B:GLU44 3.6 52.0 1.0 CG2 B:ILE260 4.1 49.2 1.0 CG B:HIS226 4.2 47.2 1.0 ND1 B:HIS226 4.2 46.9 1.0 O B:HOH497 4.2 53.0 1.0 CG B:HIS224 4.3 52.0 1.0 ND1 B:HIS224 4.4 52.2 1.0 CG B:GLU44 4.4 49.2 1.0 OE1 B:GLN47 4.5 55.8 1.0 CG2 A:ILE325 4.6 58.8 1.0 CB B:GLU44 5.0 49.2 1.0

S.L.Bulfer, E.M.Scott, J.F.Couture, L.Pillus, R.C.Trievel. Crystal Structure and Functional Analysis of Homocitrate Synthase, An Essential Enzyme in Lysine Biosynthesis. J.Biol.Chem. V. 284 35769 2009.
ISSN: ISSN 0021-9258
PubMed: 19776021
DOI: 10.1074/JBC.M109.046821