Potassium in PDB 3oyx: Haloferax Volcanii Malate Synthase Magnesium/Glyoxylate Complex

All present enzymatic activity of Haloferax Volcanii Malate Synthase Magnesium/Glyoxylate Complex:
2.3.3.9;

The structure of Haloferax Volcanii Malate Synthase Magnesium/Glyoxylate Complex, PDB code: 3oyx was solved by B.R.Howard, C.Bracken, A.Neighbor, G.Thomas, K.K.Lamlenn, H.L.Schubert, F.G.Whitby, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20.00 / 2.51
Space group	H 3 2
Cell size a, b, c (Å), α, β, γ (°)	155.023, 155.023, 141.787, 90.00, 90.00, 120.00
R / Rfree (%)	19.2 / 24.8

The structure of Haloferax Volcanii Malate Synthase Magnesium/Glyoxylate Complex also contains other interesting chemical elements:

Magnesium	(Mg)	1 atom
Chlorine	(Cl)	5 atoms

The binding sites of Potassium atom in the Haloferax Volcanii Malate Synthase Magnesium/Glyoxylate Complex (pdb code 3oyx). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 3 binding sites of Potassium where determined in the Haloferax Volcanii Malate Synthase Magnesium/Glyoxylate Complex, PDB code: 3oyx:
Jump to Potassium binding site number: 1; 2; 3;

Potassium binding site 1 out of 3 in the Haloferax Volcanii Malate Synthase Magnesium/Glyoxylate Complex


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Haloferax Volcanii Malate Synthase Magnesium/Glyoxylate Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:K801 b:50.7 occ:1.00 OG A:SER217 2.7 42.0 1.0 O A:GLY252 3.0 40.2 1.0 OG A:SER221 3.0 48.8 1.0 CL A:CL701 3.1 40.8 1.0 O A:SER217 3.3 37.2 1.0 C A:GLY252 3.8 41.1 1.0 CB A:SER217 3.9 39.7 1.0 C A:SER217 3.9 37.6 1.0 CA A:SER217 4.0 38.5 1.0 CB A:SER221 4.2 45.6 1.0 CA A:GLY252 4.2 41.1 1.0 N A:SER221 4.3 42.8 1.0 CB A:ALA220 4.6 41.4 1.0 CA A:SER221 4.7 44.6 1.0 O A:LYS251 4.8 44.8 1.0 CB A:ALA227 4.8 38.5 1.0 N A:MET253 4.8 40.7 1.0 N A:ARG218 4.9 38.0 1.0

Potassium binding site 2 out of 3 in the Haloferax Volcanii Malate Synthase Magnesium/Glyoxylate Complex


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Haloferax Volcanii Malate Synthase Magnesium/Glyoxylate Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:K802 b:39.5 occ:1.00 O A:LYS175 2.6 42.6 1.0 O A:MET173 2.6 44.6 1.0 O A:ASN178 2.7 37.9 1.0 O A:HOH499 2.8 51.4 1.0 OE2 A:GLU181 2.8 61.4 1.0 OD1 A:ASN178 2.9 33.0 1.0 OE1 A:GLU181 3.0 51.4 1.0 CD A:GLU181 3.2 54.5 1.0 C A:ASN178 3.6 40.3 1.0 C A:MET173 3.6 43.2 1.0 C A:LYS175 3.7 42.7 1.0 CG A:ASN178 3.8 40.4 1.0 C A:GLY174 4.0 43.0 1.0 O A:GLY174 4.1 43.2 1.0 N A:LEU180 4.1 41.0 1.0 CA A:ASN179 4.2 40.4 1.0 N A:LYS175 4.2 41.8 1.0 N A:ASN179 4.3 40.3 1.0 CA A:GLY174 4.3 42.1 1.0 N A:GLY174 4.4 43.0 1.0 N A:ASN178 4.4 41.1 1.0 ND2 A:ASN178 4.4 36.3 1.0 C A:ASN179 4.4 41.2 1.0 CA A:PRO176 4.5 42.4 1.0 CA A:ASN178 4.5 39.9 1.0 CA A:MET173 4.5 43.8 1.0 K A:K803 4.5 53.1 1.0 CA A:LYS175 4.6 42.1 1.0 N A:PRO176 4.6 43.2 1.0 CG A:GLU181 4.6 45.7 1.0 CB A:ASN178 4.7 40.0 1.0 N A:GLU181 4.7 39.5 1.0 C A:PRO176 4.8 42.3 1.0 O A:GLU172 4.9 45.2 1.0 O A:PRO176 5.0 41.7 1.0 CA A:LEU180 5.0 40.3 1.0

Potassium binding site 3 out of 3 in the Haloferax Volcanii Malate Synthase Magnesium/Glyoxylate Complex


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Haloferax Volcanii Malate Synthase Magnesium/Glyoxylate Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:K803 b:53.1 occ:1.00 OD1 A:ASN179 2.7 43.1 1.0 O A:PRO176 2.7 41.7 1.0 O A:ASN178 2.8 37.9 1.0 O A:HOH476 3.1 44.3 1.0 O A:HOH499 3.5 51.4 1.0 C A:ASN178 3.6 40.3 1.0 CG A:ASN179 3.7 41.5 1.0 C A:PRO176 3.8 42.3 1.0 O A:HOH535 3.8 56.9 1.0 N A:ASN179 4.2 40.3 1.0 N A:ASN178 4.2 41.1 1.0 CA A:ASN179 4.3 40.4 1.0 CA A:PRO176 4.4 42.4 1.0 ND2 A:ASN179 4.4 43.6 1.0 CA A:ASN178 4.5 39.9 1.0 K A:K802 4.5 39.5 1.0 CB A:ASN179 4.6 41.1 1.0 C A:THR177 4.7 41.2 1.0 N A:THR177 4.8 41.5 1.0 O A:LYS175 4.9 42.6 1.0 CA A:THR177 5.0 41.3 1.0

C.D.Bracken, A.M.Neighbor, K.K.Lamlenn, G.C.Thomas, H.L.Schubert, F.G.Whitby, B.R.Howard. Crystal Structures of A Halophilic Archaeal Malate Synthase From Haloferax Volcanii and Comparisons with Isoforms A and G. Bmc Struct.Biol. V. 11 23 2011.
ISSN: ESSN 1472-6807
PubMed: 21569248
DOI: 10.1186/1472-6807-11-23