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Cadmium in PDB 1fa7: Crystal Structure of Cd(II)-Bound Glyoxalase I of Escherichia Coli

Enzymatic activity of Crystal Structure of Cd(II)-Bound Glyoxalase I of Escherichia Coli

All present enzymatic activity of Crystal Structure of Cd(II)-Bound Glyoxalase I of Escherichia Coli:
4.4.1.5;

Protein crystallography data

The structure of Crystal Structure of Cd(II)-Bound Glyoxalase I of Escherichia Coli, PDB code: 1fa7 was solved by M.M.He, S.L.Clugston, J.F.Honek, B.W.Matthews, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 1.90
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 45.930, 56.390, 46.790, 90.00, 95.24, 90.00
R / Rfree (%) 17.7 / 28.1

Cadmium Binding Sites:

The binding sites of Cadmium atom in the Crystal Structure of Cd(II)-Bound Glyoxalase I of Escherichia Coli (pdb code 1fa7). This binding sites where shown within 5.0 Angstroms radius around Cadmium atom.
In total 2 binding sites of Cadmium where determined in the Crystal Structure of Cd(II)-Bound Glyoxalase I of Escherichia Coli, PDB code: 1fa7:
Jump to Cadmium binding site number: 1; 2;

Cadmium binding site 1 out of 2 in 1fa7

Go back to Cadmium Binding Sites List in 1fa7
Cadmium binding site 1 out of 2 in the Crystal Structure of Cd(II)-Bound Glyoxalase I of Escherichia Coli


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 1 of Crystal Structure of Cd(II)-Bound Glyoxalase I of Escherichia Coli within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd1200

b:15.5
occ:1.00
NE2 A:HIS5 2.2 8.4 1.0
OE1 A:GLU56 2.3 14.2 1.0
OE1 B:GLU122 2.3 17.9 1.0
O A:HOH1255 2.4 10.6 1.0
O B:HOH1293 2.4 10.2 1.0
NE2 B:HIS74 2.4 7.6 1.0
CE1 A:HIS5 3.0 8.8 1.0
CE1 B:HIS74 3.2 6.8 1.0
CD A:GLU56 3.2 18.6 1.0
CD2 A:HIS5 3.3 9.5 1.0
CD B:GLU122 3.3 18.2 1.0
CD2 B:HIS74 3.5 13.6 1.0
OE2 A:GLU56 3.6 12.2 1.0
OE2 B:GLU122 3.8 20.4 1.0
O A:HOH1299 3.9 14.4 1.0
O A:HOH1305 4.2 59.0 1.0
ND1 A:HIS5 4.2 10.2 1.0
CG A:HIS5 4.4 9.6 1.0
CB B:ALA76 4.4 9.0 1.0
O A:HOH1227 4.4 33.9 1.0
ND1 B:HIS74 4.4 11.7 1.0
CB A:MET7 4.5 7.3 1.0
CG B:GLU122 4.6 13.8 1.0
CG A:GLU56 4.6 2.1 1.0
CG B:HIS74 4.6 13.3 1.0
CB B:GLU122 4.6 18.7 1.0
CB A:GLU56 4.8 9.4 1.0
CG A:MET7 4.9 12.9 1.0

Cadmium binding site 2 out of 2 in 1fa7

Go back to Cadmium Binding Sites List in 1fa7
Cadmium binding site 2 out of 2 in the Crystal Structure of Cd(II)-Bound Glyoxalase I of Escherichia Coli


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 2 of Crystal Structure of Cd(II)-Bound Glyoxalase I of Escherichia Coli within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cd1201

b:14.6
occ:1.00
O B:HOH1288 2.3 15.1 1.0
NE2 B:HIS5 2.3 18.1 1.0
OE1 B:GLU56 2.4 18.4 1.0
O A:HOH1281 2.5 13.3 1.0
NE2 A:HIS74 2.6 3.8 1.0
OE1 A:GLU122 2.6 55.3 1.0
CE1 B:HIS5 3.1 14.4 1.0
CD2 B:HIS5 3.3 19.8 1.0
CD A:GLU122 3.3 48.1 1.0
CD B:GLU56 3.4 14.7 1.0
CE1 A:HIS74 3.5 3.9 1.0
OE2 A:GLU122 3.6 20.4 1.0
CD2 A:HIS74 3.6 8.1 1.0
OE2 B:GLU56 3.7 16.6 1.0
O B:HOH1225 3.8 16.5 1.0
O A:HOH1230 4.2 31.1 1.0
CB A:ALA76 4.3 13.0 1.0
ND1 B:HIS5 4.3 15.8 1.0
CG B:HIS5 4.4 15.3 1.0
CB B:MET7 4.5 5.9 1.0
ND1 A:HIS74 4.6 10.5 1.0
CG A:GLU122 4.7 26.1 1.0
CG B:GLU56 4.7 4.9 1.0
CG A:HIS74 4.7 10.1 1.0
CB A:GLU122 4.8 12.4 1.0
CG B:MET7 4.8 4.0 1.0
CB B:GLU56 4.9 10.1 1.0

Reference:

M.M.He, S.L.Clugston, J.F.Honek, B.W.Matthews. Determination of the Structure of Escherichia Coli Glyoxalase I Suggests A Structural Basis For Differential Metal Activation. Biochemistry V. 39 8719 2000.
ISSN: ISSN 0006-2960
PubMed: 10913283
DOI: 10.1021/BI000856G
Page generated: Wed Oct 28 09:53:03 2020
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