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

Enzymatic activity of Haloferax Volcanii Malate Synthase Magnesium/Glyoxylate Complex

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

Protein crystallography data

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

Other elements in 3oyx:

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

Magnesium (Mg) 1 atom
Potassium (K) 3 atoms

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Haloferax Volcanii Malate Synthase Magnesium/Glyoxylate Complex (pdb code 3oyx). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 5 binding sites of Chlorine where determined in the Haloferax Volcanii Malate Synthase Magnesium/Glyoxylate Complex, PDB code: 3oyx:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5;

Chlorine binding site 1 out of 5 in 3oyx

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Chlorine binding site 1 out of 5 in the Haloferax Volcanii Malate Synthase Magnesium/Glyoxylate Complex


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Haloferax Volcanii Malate Synthase Magnesium/Glyoxylate Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl701

b:40.8
occ:1.00
 K A:K801 3.1 50.7 1.0
O A:HOH458 3.1 43.8 1.0
N A:ALA227 3.3 37.8 1.0
CA A:VAL226 3.8 37.5 1.0
O A:GLY252 3.8 40.2 1.0
C A:VAL226 4.0 37.7 1.0
CB A:ALA227 4.0 38.5 1.0
O A:CYS225 4.1 38.9 1.0
CB A:ALA220 4.1 41.4 1.0
CA A:ALA227 4.3 37.2 1.0
CG1 A:VAL226 4.5 37.3 1.0
O A:ALA227 4.6 41.0 1.0
CB A:VAL226 4.7 36.7 1.0
OG A:SER221 4.8 48.8 1.0
N A:VAL226 4.8 39.2 1.0
C A:CYS225 4.9 39.1 1.0
C A:ALA227 5.0 39.5 1.0

Chlorine binding site 2 out of 5 in 3oyx

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Chlorine binding site 2 out of 5 in the Haloferax Volcanii Malate Synthase Magnesium/Glyoxylate Complex


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Haloferax Volcanii Malate Synthase Magnesium/Glyoxylate Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl702

b:54.4
occ:1.00
 NH2 A:ARG95 3.3 31.6 1.0
NH1 A:ARG95 3.3 33.3 1.0
O A:ARG89 3.4 42.9 1.0
C A:ASP90 3.5 42.7 1.0
O A:ASP90 3.6 42.1 1.0
O A:HOH527 3.6 57.1 1.0
CD A:PRO92 3.7 39.0 1.0
CZ A:ARG95 3.8 35.9 1.0
CA A:ASP90 3.8 42.5 1.0
CG A:PRO92 3.9 39.5 1.0
N A:SER91 4.0 43.1 1.0
N A:PRO92 4.3 40.4 1.0
C A:ARG89 4.3 42.3 1.0
O A:HOH483 4.4 45.4 1.0
N A:ASP90 4.5 41.8 1.0
CA A:SER91 4.6 41.9 1.0
C A:SER91 4.7 41.0 1.0

Chlorine binding site 3 out of 5 in 3oyx

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Chlorine binding site 3 out of 5 in the Haloferax Volcanii Malate Synthase Magnesium/Glyoxylate Complex


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Haloferax Volcanii Malate Synthase Magnesium/Glyoxylate Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl703

b:67.6
occ:0.33
 NH2 A:ARG218 3.5 36.4 1.0
NH1 A:ARG218 3.8 37.6 1.0
O A:HOH442 4.0 45.8 1.0
CZ A:ARG218 4.1 43.3 1.0
OD1 A:ASN215 4.4 37.8 1.0
ND2 A:ASN215 4.4 37.1 1.0
CG A:ASN215 4.7 40.3 1.0
O A:HOH505 4.9 54.7 1.0

Chlorine binding site 4 out of 5 in 3oyx

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Chlorine binding site 4 out of 5 in the Haloferax Volcanii Malate Synthase Magnesium/Glyoxylate Complex


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Haloferax Volcanii Malate Synthase Magnesium/Glyoxylate Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl704

b:73.8
occ:1.00
 O A:HOH557 3.0 55.0 1.0
N A:ALA208 3.3 44.4 1.0
CA A:PRO207 3.6 46.2 1.0
CB A:PRO207 3.9 45.6 1.0
O A:HOH480 3.9 65.5 1.0
C A:PRO207 4.0 45.8 1.0
CB A:ALA208 4.0 42.5 1.0
O A:HOH553 4.2 45.2 1.0
CA A:ALA208 4.3 43.1 1.0
N A:PRO207 4.9 47.5 1.0
O A:LEU206 4.9 50.6 1.0
O A:HOH468 5.0 53.9 1.0

Chlorine binding site 5 out of 5 in 3oyx

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Chlorine binding site 5 out of 5 in the Haloferax Volcanii Malate Synthase Magnesium/Glyoxylate Complex


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 5 of Haloferax Volcanii Malate Synthase Magnesium/Glyoxylate Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl705

b:52.4
occ:1.00
 O A:HOH462 3.0 31.5 1.0
N A:ILE127 3.0 37.1 1.0
O A:HOH531 3.1 44.1 1.0
CA A:GLY126 3.6 36.2 1.0
O A:HOH511 3.7 42.9 1.0
CG2 A:ILE127 3.8 36.5 1.0
C A:GLY126 3.8 37.3 1.0
CB A:ILE127 4.0 36.8 1.0
CA A:ALA165 4.0 38.1 1.0
CB A:ALA165 4.0 36.9 1.0
CA A:ILE127 4.1 36.0 1.0
N A:ALA165 4.6 38.0 1.0
O A:HOH506 4.9 54.9 1.0
O A:GLU161 4.9 39.1 1.0

Reference:

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
Page generated: Sun Jul 21 02:03:21 2024

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