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Magnesium in PDB 1ow2: Structure and Mechanism of Action of Isopentenylpyrophosphate- Dimethylallylpyrophosphate Isomerase: Complex of C67A Mutant with Eipp

Enzymatic activity of Structure and Mechanism of Action of Isopentenylpyrophosphate- Dimethylallylpyrophosphate Isomerase: Complex of C67A Mutant with Eipp

All present enzymatic activity of Structure and Mechanism of Action of Isopentenylpyrophosphate- Dimethylallylpyrophosphate Isomerase: Complex of C67A Mutant with Eipp:
5.3.3.2;

Protein crystallography data

The structure of Structure and Mechanism of Action of Isopentenylpyrophosphate- Dimethylallylpyrophosphate Isomerase: Complex of C67A Mutant with Eipp, PDB code: 1ow2 was solved by J.Wouters, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 6.00 / 2.00
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 68.948, 71.394, 92.381, 90.00, 90.00, 90.00
R / Rfree (%) 22.8 / 29.4

Other elements in 1ow2:

The structure of Structure and Mechanism of Action of Isopentenylpyrophosphate- Dimethylallylpyrophosphate Isomerase: Complex of C67A Mutant with Eipp also contains other interesting chemical elements:

Manganese (Mn) 2 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Structure and Mechanism of Action of Isopentenylpyrophosphate- Dimethylallylpyrophosphate Isomerase: Complex of C67A Mutant with Eipp (pdb code 1ow2). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Structure and Mechanism of Action of Isopentenylpyrophosphate- Dimethylallylpyrophosphate Isomerase: Complex of C67A Mutant with Eipp, PDB code: 1ow2:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 1ow2

Go back to Magnesium Binding Sites List in 1ow2
Magnesium binding site 1 out of 2 in the Structure and Mechanism of Action of Isopentenylpyrophosphate- Dimethylallylpyrophosphate Isomerase: Complex of C67A Mutant with Eipp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure and Mechanism of Action of Isopentenylpyrophosphate- Dimethylallylpyrophosphate Isomerase: Complex of C67A Mutant with Eipp within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg401

b:18.4
occ:1.00
 O A:HOH630 1.9 26.1 1.0
O3 A:EIP301 2.0 39.0 1.0
O A:HOH629 2.0 23.6 1.0
OE2 A:GLU87 2.1 21.8 1.0
O6 A:EIP301 2.1 23.0 1.0
O A:ALA67 2.2 29.2 1.0
CD A:GLU87 3.0 28.1 1.0
OE1 A:GLU87 3.3 26.2 1.0
P4 A:EIP301 3.3 28.5 1.0
C A:ALA67 3.3 22.7 1.0
P8 A:EIP301 3.3 30.6 1.0
O5 A:EIP301 3.5 24.9 1.0
O9 A:EIP301 3.9 30.6 1.0
N A:ALA67 3.9 18.8 1.0
O2 A:EIP301 4.0 25.5 1.0
CA A:ALA67 4.1 23.9 1.0
NH1 A:ARG51 4.1 30.5 1.0
O A:HOH507 4.2 25.3 1.0
N A:GLY68 4.2 19.9 1.0
O1 A:EIP301 4.2 31.6 1.0
CA A:GLY68 4.3 18.5 1.0
CG A:GLU87 4.3 25.2 1.0
OE1 A:GLU135 4.3 25.7 1.0
NH2 A:ARG83 4.3 22.0 1.0
NE A:ARG83 4.4 30.6 1.0
O7 A:EIP301 4.4 22.6 1.0
CB A:ALA67 4.5 23.0 1.0
O A:HOH503 4.5 16.7 1.0
NZ A:LYS55 4.8 32.8 1.0
CZ A:ARG83 4.9 35.9 1.0

Magnesium binding site 2 out of 2 in 1ow2

Go back to Magnesium Binding Sites List in 1ow2
Magnesium binding site 2 out of 2 in the Structure and Mechanism of Action of Isopentenylpyrophosphate- Dimethylallylpyrophosphate Isomerase: Complex of C67A Mutant with Eipp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure and Mechanism of Action of Isopentenylpyrophosphate- Dimethylallylpyrophosphate Isomerase: Complex of C67A Mutant with Eipp within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg401

b:23.7
occ:1.00
 O B:ALA67 1.9 26.3 1.0
O3 B:EIP301 1.9 22.4 1.0
O6 B:EIP301 2.0 38.2 1.0
OE2 B:GLU87 2.2 28.9 1.0
O B:HOH520 2.3 32.5 1.0
O B:HOH519 2.3 21.9 1.0
C B:ALA67 3.0 32.8 1.0
CD B:GLU87 3.0 30.1 1.0
P4 B:EIP301 3.1 31.9 1.0
OE1 B:GLU87 3.3 26.4 1.0
P8 B:EIP301 3.3 37.7 1.0
O5 B:EIP301 3.3 32.6 1.0
N B:ALA67 3.8 22.0 1.0
N B:GLY68 3.9 28.9 1.0
CA B:ALA67 3.9 29.4 1.0
O2 B:EIP301 4.0 35.4 1.0
CA B:GLY68 4.0 24.1 1.0
NE B:ARG83 4.0 29.5 1.0
O9 B:EIP301 4.0 39.1 1.0
O1 B:EIP301 4.1 32.9 1.0
O7 B:EIP301 4.2 40.2 1.0
NH2 B:ARG83 4.2 35.7 1.0
OE1 B:GLU135 4.3 31.5 1.0
CG B:GLU87 4.4 28.0 1.0
CB B:ALA67 4.4 24.6 1.0
O B:HOH512 4.4 15.8 1.0
CZ B:ARG83 4.6 32.3 1.0
CG B:ARG83 4.7 26.8 1.0
NH1 B:ARG51 4.7 30.1 1.0
O B:HOH516 4.7 28.4 1.0
CG2 B:VAL66 5.0 20.3 1.0

Reference:

J.Wouters, Y.Oudjama, V.Stalon, L.Droogmans, C.D.Poulter. Crystal Structure of the C67A Mutant of Isopentenyl Diphosphate Isomerase Complexed with A Mechanism-Based Irreversible Inhibitor Proteins V. 54 216 2004.
ISSN: ISSN 0887-3585
PubMed: 14696183
DOI: 10.1002/PROT.10573
Page generated: Tue Aug 13 10:43:36 2024

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