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Chlorine in PDB 4o11: Crystal Structure of Orotidine 5'-Monophosphate Decarboxylase From Methanobacterium Thermoautotrophicum Complexed with 6-Hydroxyuridine 5'-Monophosphate

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

All present enzymatic activity of Crystal Structure of Orotidine 5'-Monophosphate Decarboxylase From Methanobacterium Thermoautotrophicum Complexed with 6-Hydroxyuridine 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-Hydroxyuridine 5'-Monophosphate, PDB code: 4o11 was solved by A.A.Fedorov, E.V.Fedorov, B.M.Wood, 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 (°) 59.780, 64.079, 61.646, 90.00, 115.46, 90.00
R / Rfree (%) 13.8 / 16.2

Other elements in 4o11:

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

Magnesium (Mg) 1 atom

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Crystal Structure of Orotidine 5'-Monophosphate Decarboxylase From Methanobacterium Thermoautotrophicum Complexed with 6-Hydroxyuridine 5'-Monophosphate (pdb code 4o11). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 3 binding sites of Chlorine where determined in the Crystal Structure of Orotidine 5'-Monophosphate Decarboxylase From Methanobacterium Thermoautotrophicum Complexed with 6-Hydroxyuridine 5'-Monophosphate, PDB code: 4o11:
Jump to Chlorine binding site number: 1; 2; 3;

Chlorine binding site 1 out of 3 in 4o11

Go back to Chlorine Binding Sites List in 4o11
Chlorine binding site 1 out of 3 in the Crystal Structure of Orotidine 5'-Monophosphate Decarboxylase From Methanobacterium Thermoautotrophicum Complexed with 6-Hydroxyuridine 5'-Monophosphate


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Crystal Structure of Orotidine 5'-Monophosphate Decarboxylase From Methanobacterium Thermoautotrophicum Complexed with 6-Hydroxyuridine 5'-Monophosphate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl302

b:27.9
occ:1.00
 O A:HOH515 2.4 25.7 1.0
O B:HOH547 2.5 19.3 1.0
O B:HOH475 3.0 23.1 1.0
N A:GLU78 3.0 8.2 1.0
CB A:GLU78 3.4 9.8 1.0
CB A:PRO77 3.7 7.8 1.0
CD A:PRO77 3.7 7.4 1.0
CA A:GLU78 3.8 8.6 1.0
CD1 A:ILE76 3.8 8.4 1.0
N A:PRO77 3.8 7.2 1.0
C A:PRO77 4.0 7.7 1.0
CA A:PRO77 4.0 7.4 1.0
CG1 A:ILE76 4.1 7.7 1.0
CG A:PRO77 4.1 7.6 1.0
CB A:ILE76 4.2 7.4 1.0
O A:HOH538 4.4 26.9 1.0
C A:ILE76 4.5 9.3 1.0
O A:HOH564 4.6 41.2 1.0
O B:HOH411 4.6 11.4 1.0
OE1 A:GLU78 4.6 42.2 1.0
CG A:GLU78 4.7 22.0 1.0
NH2 B:ARG203 4.8 10.7 1.0
CA A:ILE76 5.0 6.8 1.0

Chlorine binding site 2 out of 3 in 4o11

Go back to Chlorine Binding Sites List in 4o11
Chlorine binding site 2 out of 3 in the Crystal Structure of Orotidine 5'-Monophosphate Decarboxylase From Methanobacterium Thermoautotrophicum Complexed with 6-Hydroxyuridine 5'-Monophosphate


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Crystal Structure of Orotidine 5'-Monophosphate Decarboxylase From Methanobacterium Thermoautotrophicum Complexed with 6-Hydroxyuridine 5'-Monophosphate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl303

b:26.5
occ:1.00
 O A:HOH583 3.2 39.6 1.0
N A:ASP104 3.4 8.0 1.0
CA B:GLY130 3.6 9.2 1.0
CE B:MET133 3.7 15.8 0.4
CG A:ASP104 3.8 8.1 1.0
N A:ALA103 3.8 6.7 1.0
OD1 A:ASP104 3.8 7.2 1.0
CB A:ALA103 3.8 10.1 1.0
CB A:ASP104 3.9 8.3 1.0
SD B:MET133 4.0 11.3 0.6
N B:GLY130 4.0 6.9 1.0
CA A:ALA103 4.1 8.7 1.0
C A:ALA103 4.1 9.7 1.0
CA A:ASP104 4.2 9.7 1.0
OD2 A:ASP104 4.2 10.1 1.0
CG B:MET133 4.5 8.0 0.6
C B:PRO129 4.6 7.1 1.0
C A:GLY102 4.7 7.3 1.0
O B:PRO129 4.8 10.3 1.0
C B:GLY130 4.9 8.2 1.0

Chlorine binding site 3 out of 3 in 4o11

Go back to Chlorine Binding Sites List in 4o11
Chlorine binding site 3 out of 3 in the Crystal Structure of Orotidine 5'-Monophosphate Decarboxylase From Methanobacterium Thermoautotrophicum Complexed with 6-Hydroxyuridine 5'-Monophosphate


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Crystal Structure of Orotidine 5'-Monophosphate Decarboxylase From Methanobacterium Thermoautotrophicum Complexed with 6-Hydroxyuridine 5'-Monophosphate within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl302

b:25.9
occ:1.00
 O A:HOH572 3.4 38.3 1.0
N B:ASP104 3.4 8.6 1.0
CA A:GLY130 3.6 9.9 1.0
CG B:ASP104 3.7 9.2 1.0
OD1 B:ASP104 3.8 9.2 1.0
O2 B:GOL303 3.8 48.3 1.0
CB B:ASP104 3.8 9.4 1.0
N B:ALA103 3.8 7.7 1.0
CE A:MET133 3.8 14.7 0.3
CB B:ALA103 3.9 9.1 1.0
SD A:MET133 4.0 12.5 0.7
N A:GLY130 4.0 8.8 1.0
CA B:ALA103 4.1 8.4 1.0
OD2 B:ASP104 4.1 9.7 1.0
CA B:ASP104 4.2 8.9 1.0
C B:ALA103 4.2 8.9 1.0
CG A:MET133 4.6 10.3 0.7
C A:PRO129 4.6 11.6 1.0
C B:GLY102 4.8 7.8 1.0
O A:PRO129 4.8 11.5 1.0
C A:GLY130 4.9 9.5 1.0

Reference:

A.A.Fedorov, E.V.Fedorov, B.M.Wood, J.A.Gerlt, S.C.Almo. Crystal Structure of Orotidine 5'-Monophosphate Decarboxylase From Methanobacterium Thermoautotrophicum Complexed with 6-Hydroxyuridine 5'-Monophosphate To Be Published.
Page generated: Thu Jul 25 23:11:13 2024

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