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Cadmium in PDB 1guy: Structural Basis For Thermophilic Protein Stability: Structures of Thermophilic and Mesophilic Malate Dehydrogenases

Enzymatic activity of Structural Basis For Thermophilic Protein Stability: Structures of Thermophilic and Mesophilic Malate Dehydrogenases

All present enzymatic activity of Structural Basis For Thermophilic Protein Stability: Structures of Thermophilic and Mesophilic Malate Dehydrogenases:
1.1.1.37;

Protein crystallography data

The structure of Structural Basis For Thermophilic Protein Stability: Structures of Thermophilic and Mesophilic Malate Dehydrogenases, PDB code: 1guy was solved by B.Dalhus, M.Sarinen, U.H.Sauer, P.Eklund, K.Johansson, A.Karlsson, S.Ramaswamy, A.Bjork, B.Synstad, K.Naterstad, R.Sirevag, H.Eklund, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.87 / 2.2
Space group P 31 2 1
Cell size a, b, c (Å), α, β, γ (°) 106.670, 106.670, 103.990, 90.00, 90.00, 120.00
R / Rfree (%) 17.4 / 19.7

Cadmium Binding Sites:

The binding sites of Cadmium atom in the Structural Basis For Thermophilic Protein Stability: Structures of Thermophilic and Mesophilic Malate Dehydrogenases (pdb code 1guy). This binding sites where shown within 5.0 Angstroms radius around Cadmium atom.
In total 5 binding sites of Cadmium where determined in the Structural Basis For Thermophilic Protein Stability: Structures of Thermophilic and Mesophilic Malate Dehydrogenases, PDB code: 1guy:
Jump to Cadmium binding site number: 1; 2; 3; 4; 5;

Cadmium binding site 1 out of 5 in 1guy

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Cadmium binding site 1 out of 5 in the Structural Basis For Thermophilic Protein Stability: Structures of Thermophilic and Mesophilic Malate Dehydrogenases


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 1 of Structural Basis For Thermophilic Protein Stability: Structures of Thermophilic and Mesophilic Malate Dehydrogenases within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd1308

b:32.1
occ:1.00
O C:HOH2106 2.4 15.4 1.0
OE2 A:GLU165 2.5 17.1 1.0
OE1 A:GLU165 2.8 18.3 1.0
CD A:GLU165 3.0 14.5 1.0
O A:HOH2079 4.0 43.1 1.0
NZ C:LYS244 4.2 13.3 1.0
OE1 C:GLU238 4.2 21.6 1.0
CE C:LYS244 4.4 16.1 1.0
CG A:GLU165 4.5 14.2 1.0
OE2 C:GLU238 4.5 21.9 1.0
CD C:GLU238 4.8 17.2 1.0
NH1 C:ARG246 5.0 9.8 1.0

Cadmium binding site 2 out of 5 in 1guy

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Cadmium binding site 2 out of 5 in the Structural Basis For Thermophilic Protein Stability: Structures of Thermophilic and Mesophilic Malate Dehydrogenases


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 2 of Structural Basis For Thermophilic Protein Stability: Structures of Thermophilic and Mesophilic Malate Dehydrogenases within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd1309

b:47.4
occ:1.00
OE1 A:GLU281 2.6 33.8 1.0
OE2 A:GLU281 2.8 31.9 1.0
CD A:GLU281 3.0 30.9 1.0
O A:HOH2146 4.3 41.8 1.0
CG A:GLU281 4.5 29.8 1.0
O A:HOH2147 4.7 36.8 1.0
O A:HOH2149 4.7 35.0 1.0
O A:HOH2145 4.8 38.6 1.0

Cadmium binding site 3 out of 5 in 1guy

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Cadmium binding site 3 out of 5 in the Structural Basis For Thermophilic Protein Stability: Structures of Thermophilic and Mesophilic Malate Dehydrogenases


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 3 of Structural Basis For Thermophilic Protein Stability: Structures of Thermophilic and Mesophilic Malate Dehydrogenases within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd1310

b:13.8
occ:1.00
OD2 A:ASP200 2.2 8.2 1.0
OD1 A:ASP200 2.5 7.4 1.0
CG A:ASP200 2.7 8.3 1.0
CB A:ASP200 4.2 10.8 1.0
O A:HOH2102 4.6 36.6 1.0

Cadmium binding site 4 out of 5 in 1guy

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Cadmium binding site 4 out of 5 in the Structural Basis For Thermophilic Protein Stability: Structures of Thermophilic and Mesophilic Malate Dehydrogenases


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 4 of Structural Basis For Thermophilic Protein Stability: Structures of Thermophilic and Mesophilic Malate Dehydrogenases within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cd1308

b:35.4
occ:1.00
O A:HOH2121 2.4 18.1 1.0
OE2 C:GLU165 2.6 17.2 1.0
OE1 C:GLU165 2.8 17.9 1.0
O A:HOH2123 2.9 43.5 1.0
CD C:GLU165 3.0 15.2 1.0
O C:HOH2070 4.2 43.7 1.0
NZ A:LYS244 4.3 12.9 1.0
OE1 A:GLU238 4.3 21.4 1.0
OE2 A:GLU238 4.4 22.1 1.0
CE A:LYS244 4.4 17.5 1.0
CG C:GLU165 4.5 15.1 1.0
CD A:GLU238 4.8 19.8 1.0

Cadmium binding site 5 out of 5 in 1guy

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Cadmium binding site 5 out of 5 in the Structural Basis For Thermophilic Protein Stability: Structures of Thermophilic and Mesophilic Malate Dehydrogenases


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 5 of Structural Basis For Thermophilic Protein Stability: Structures of Thermophilic and Mesophilic Malate Dehydrogenases within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cd1309

b:41.7
occ:1.00
OE2 C:GLU159 2.6 29.9 1.0
O C:HOH2064 2.7 32.8 1.0
OE1 C:GLU159 2.9 28.1 1.0
CD C:GLU159 3.1 26.2 1.0
O C:HOH2090 3.4 28.0 1.0
O C:HOH2063 3.4 41.0 1.0
CG C:GLU159 4.6 22.8 1.0
O C:GLU159 4.6 14.0 1.0
CA C:GLU159 5.0 16.6 1.0

Reference:

B.Dalhus, M.Saarinen, U.H.Sauer, P.Eklund, K.Johansson, A.Karlsson, S.Ramaswamy, A.Bjork, B.Synstad, K.Naterstad, R.Sirevag, H.Eklund. Structural Basis For Thermophilic Protein Stability: Structures of Thermophilic and Mesophilic Malate Dehydrogenases J.Mol.Biol. V. 318 707 2002.
ISSN: ISSN 0022-2836
PubMed: 12054817
DOI: 10.1016/S0022-2836(02)00050-5
Page generated: Fri Aug 28 11:53:49 2020
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