Magnesium in PDB 8cnr: Hybrid Cluster Protein From the Thermophilic Methanogen Methanothermococcus Thermolithotrophicus As Isolated in A Reduced State at 1.45-A Resolution

Enzymatic activity of Hybrid Cluster Protein From the Thermophilic Methanogen Methanothermococcus Thermolithotrophicus As Isolated in A Reduced State at 1.45-A Resolution

All present enzymatic activity of Hybrid Cluster Protein From the Thermophilic Methanogen Methanothermococcus Thermolithotrophicus As Isolated in A Reduced State at 1.45-A Resolution:
1.7.99.1;

Protein crystallography data

The structure of Hybrid Cluster Protein From the Thermophilic Methanogen Methanothermococcus Thermolithotrophicus As Isolated in A Reduced State at 1.45-A Resolution, PDB code: 8cnr was solved by O.N.Lemaire, T.Wagner, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 51.06 / 1.45
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 97.557, 102.454, 58.896, 90, 90, 90
R / Rfree (%) 13.3 / 15.2

Other elements in 8cnr:

The structure of Hybrid Cluster Protein From the Thermophilic Methanogen Methanothermococcus Thermolithotrophicus As Isolated in A Reduced State at 1.45-A Resolution also contains other interesting chemical elements:

Iron (Fe) 8 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Hybrid Cluster Protein From the Thermophilic Methanogen Methanothermococcus Thermolithotrophicus As Isolated in A Reduced State at 1.45-A Resolution (pdb code 8cnr). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Hybrid Cluster Protein From the Thermophilic Methanogen Methanothermococcus Thermolithotrophicus As Isolated in A Reduced State at 1.45-A Resolution, PDB code: 8cnr:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in 8cnr

Go back to Magnesium Binding Sites List in 8cnr
Magnesium binding site 1 out of 4 in the Hybrid Cluster Protein From the Thermophilic Methanogen Methanothermococcus Thermolithotrophicus As Isolated in A Reduced State at 1.45-A Resolution


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Hybrid Cluster Protein From the Thermophilic Methanogen Methanothermococcus Thermolithotrophicus As Isolated in A Reduced State at 1.45-A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg601

b:41.7
occ:1.00
 O A:HOH1186 2.4 45.0 1.0
OG A:SER188 2.7 17.8 1.0
O A:HOH756 3.4 48.5 1.0
CB A:SER188 3.7 18.7 1.0
CD2 A:LEU189 3.9 21.2 1.0
O A:SER188 4.2 16.3 1.0
C A:SER188 4.4 15.7 1.0
OD2 A:ASP186 4.6 22.0 1.0
CA A:SER188 4.7 14.6 1.0
OE2 A:GLU193 4.7 41.4 1.0
N A:LEU189 4.8 15.1 1.0
OE1 A:GLU193 4.9 25.4 1.0

Magnesium binding site 2 out of 4 in 8cnr

Go back to Magnesium Binding Sites List in 8cnr
Magnesium binding site 2 out of 4 in the Hybrid Cluster Protein From the Thermophilic Methanogen Methanothermococcus Thermolithotrophicus As Isolated in A Reduced State at 1.45-A Resolution


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Hybrid Cluster Protein From the Thermophilic Methanogen Methanothermococcus Thermolithotrophicus As Isolated in A Reduced State at 1.45-A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg602

b:45.6
occ:0.96
 OE1 A:GLU299 2.9 30.6 0.4
O A:HOH971 2.9 27.5 1.0
NH2 A:ARG322 3.0 14.8 1.0
OE2 A:GLU299 3.0 30.3 0.4
O A:SER318 3.2 19.2 1.0
CD A:GLU299 3.3 30.6 0.4
O A:HOH1000 3.3 30.8 1.0
O A:HOH1050 3.8 57.2 1.0
C A:SER318 3.9 15.8 1.0
CZ A:ARG322 4.0 10.4 1.0
NE A:ARG322 4.0 12.6 1.0
CB A:SER318 4.1 18.9 1.0
O A:HOH842 4.3 19.4 1.0
CA A:SER318 4.4 20.0 1.0
CG A:GLU299 4.5 11.3 0.6
O A:GLU299 4.6 14.1 1.0
OG A:SER318 4.6 22.0 1.0
O A:HOH848 4.6 31.8 1.0
N A:TYR319 4.7 15.1 1.0
CG A:GLU299 4.8 30.2 0.4
CA A:TYR319 5.0 13.1 1.0

Magnesium binding site 3 out of 4 in 8cnr

Go back to Magnesium Binding Sites List in 8cnr
Magnesium binding site 3 out of 4 in the Hybrid Cluster Protein From the Thermophilic Methanogen Methanothermococcus Thermolithotrophicus As Isolated in A Reduced State at 1.45-A Resolution


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Hybrid Cluster Protein From the Thermophilic Methanogen Methanothermococcus Thermolithotrophicus As Isolated in A Reduced State at 1.45-A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg604

b:60.4
occ:1.00
 O A:HOH1330 2.1 51.4 1.0
O A:HOH1342 2.5 34.4 1.0
O A:HOH1111 3.0 55.7 1.0
CG A:LYS335 4.8 25.6 1.0
O A:GLY333 4.8 20.0 1.0

Magnesium binding site 4 out of 4 in 8cnr

Go back to Magnesium Binding Sites List in 8cnr
Magnesium binding site 4 out of 4 in the Hybrid Cluster Protein From the Thermophilic Methanogen Methanothermococcus Thermolithotrophicus As Isolated in A Reduced State at 1.45-A Resolution


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Hybrid Cluster Protein From the Thermophilic Methanogen Methanothermococcus Thermolithotrophicus As Isolated in A Reduced State at 1.45-A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg605

b:35.8
occ:1.00
 O A:HOH1237 2.3 36.5 1.0
O A:HOH1340 2.3 51.6 1.0
O A:HOH1211 2.3 45.4 1.0
NZ A:LYS214 3.0 43.2 0.9
CE A:LYS214 3.2 37.3 0.9
OE2 A:GLU218 4.4 16.0 1.0
OE1 A:GLU218 4.4 11.2 1.0
O A:HOH1314 4.4 24.5 1.0
CD A:LYS214 4.7 17.4 0.9
CD A:GLU218 4.9 16.3 1.0

Reference:

O.N.Lemaire, M.Belhamri, T.Wagner. Structural and Biochemical Elucidation of Class I Hybrid Cluster Protein Natively Extracted From A Marine Methanogenic Archaeon To Be Published.
Page generated: Tue Apr 25 23:23:50 2023

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