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Magnesium in PDB 4nx5: Crystal Structure of Orotidine 5'-Monophosphate Decarboxylase From Methanobacterium Thermoautotrophicum Complexed with 6-Azauridine 5'- Monophosphate

Enzymatic activity of Crystal Structure of Orotidine 5'-Monophosphate Decarboxylase From Methanobacterium Thermoautotrophicum Complexed with 6-Azauridine 5'- Monophosphate

All present enzymatic activity of Crystal Structure of Orotidine 5'-Monophosphate Decarboxylase From Methanobacterium Thermoautotrophicum Complexed with 6-Azauridine 5'- Monophosphate:
4.1.1.23;

Protein crystallography data

The structure of Crystal Structure of Orotidine 5'-Monophosphate Decarboxylase From Methanobacterium Thermoautotrophicum Complexed with 6-Azauridine 5'- Monophosphate, PDB code: 4nx5 was solved by A.A.Fedorov, E.V.Fedorov, K.K.Chan, J.A.Gerlt, S.C.Almo, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 32.41 / 1.59
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 59.737, 64.148, 61.527, 90.00, 115.36, 90.00
R / Rfree (%) 14.8 / 16.8

Other elements in 4nx5:

The structure of Crystal Structure of Orotidine 5'-Monophosphate Decarboxylase From Methanobacterium Thermoautotrophicum Complexed with 6-Azauridine 5'- Monophosphate also contains other interesting chemical elements:

Chlorine (Cl) 4 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of Orotidine 5'-Monophosphate Decarboxylase From Methanobacterium Thermoautotrophicum Complexed with 6-Azauridine 5'- Monophosphate (pdb code 4nx5). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Crystal Structure of Orotidine 5'-Monophosphate Decarboxylase From Methanobacterium Thermoautotrophicum Complexed with 6-Azauridine 5'- Monophosphate, PDB code: 4nx5:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 4nx5

Go back to Magnesium Binding Sites List in 4nx5
Magnesium binding site 1 out of 2 in the Crystal Structure of Orotidine 5'-Monophosphate Decarboxylase From Methanobacterium Thermoautotrophicum Complexed with 6-Azauridine 5'- Monophosphate


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of Orotidine 5'-Monophosphate Decarboxylase From Methanobacterium Thermoautotrophicum Complexed with 6-Azauridine 5'- Monophosphate within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg306

b:10.0
occ:0.34
 O B:HOH624 1.9 36.2 1.0
O B:HOH623 1.9 23.3 1.0
O B:HOH523 2.1 27.9 1.0
O B:HOH596 2.1 35.1 1.0
O B:HOH625 2.2 37.9 1.0
O B:GLU115 4.2 13.9 1.0
O B:GLU114 4.3 13.7 1.0
CA B:GLU115 4.7 13.0 1.0
C B:GLU115 4.8 13.0 1.0

Magnesium binding site 2 out of 2 in 4nx5

Go back to Magnesium Binding Sites List in 4nx5
Magnesium binding site 2 out of 2 in the Crystal Structure of Orotidine 5'-Monophosphate Decarboxylase From Methanobacterium Thermoautotrophicum Complexed with 6-Azauridine 5'- Monophosphate


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of Orotidine 5'-Monophosphate Decarboxylase From Methanobacterium Thermoautotrophicum Complexed with 6-Azauridine 5'- Monophosphate within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg307

b:5.9
occ:0.26
 O B:HOH467 2.0 25.8 1.0
O B:SER221 2.0 19.8 1.0
O B:HOH626 2.1 28.2 1.0
O B:HOH518 2.1 32.2 1.0
O B:HOH477 2.1 27.4 1.0
O B:HOH627 2.2 33.1 1.0
C B:SER221 3.2 18.2 1.0
O B:HOH559 4.0 26.8 1.0
OD2 B:ASP224 4.1 35.6 1.0
O B:HOH461 4.1 19.4 1.0
CA B:SER221 4.1 16.9 1.0
O B:HOH543 4.2 29.6 1.0
N B:ILE222 4.2 14.6 1.0
O B:HOH592 4.3 34.5 1.0
CA B:ILE222 4.3 13.0 1.0
O B:HOH430 4.3 18.7 1.0
CB B:SER221 4.5 13.8 1.0
CG B:ASP224 4.9 37.4 1.0
OD1 B:ASP224 5.0 38.1 1.0

Reference:

A.A.Fedorov, E.V.Fedorov, K.K.Chan, J.A.Gerlt, S.C.Almo. Crystal Structure of Orotidine 5'-Monophosphate Decarboxylase From Methanobacterium Thermoautotrophicum Complexed with 6-Azauridine 5'-Monophosphate To Be Published.
Page generated: Mon Aug 19 23:48:29 2024

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