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Magnesium in PDB 6x1o: WOR5 From Pyrococcus Furiosus, As Crystallized

Protein crystallography data

The structure of WOR5 From Pyrococcus Furiosus, As Crystallized, PDB code: 6x1o was solved by L.G.Mathew, W.N.Lanzilotta, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 47.19 / 2.09
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 123.092, 126.821, 141.289, 90, 90, 90
R / Rfree (%) 17.9 / 20.5

Other elements in 6x1o:

The structure of WOR5 From Pyrococcus Furiosus, As Crystallized also contains other interesting chemical elements:

Chlorine (Cl) 2 atoms
Tungsten (W) 2 atoms
Iron (Fe) 40 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the WOR5 From Pyrococcus Furiosus, As Crystallized (pdb code 6x1o). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 6 binding sites of Magnesium where determined in the WOR5 From Pyrococcus Furiosus, As Crystallized, PDB code: 6x1o:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6;

Magnesium binding site 1 out of 6 in 6x1o

Go back to Magnesium Binding Sites List in 6x1o
Magnesium binding site 1 out of 6 in the WOR5 From Pyrococcus Furiosus, As Crystallized


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of WOR5 From Pyrococcus Furiosus, As Crystallized within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg702

b:37.2
occ:1.00
MG1 A:PTE702 0.0 37.2 1.0
O1P A:PTE702 2.0 34.4 1.0
O5P A:PTE702 2.0 33.4 1.0
O1G A:PTE702 2.1 33.9 1.0
O2G A:PTE702 2.1 33.4 1.0
O A:ALA196 2.4 27.9 1.0
O A:VAL94 2.6 31.8 1.0
P2 A:PTE702 3.2 33.5 1.0
P1 A:PTE702 3.3 33.2 1.0
O7P A:PTE702 3.3 33.9 1.0
O3P A:PTE702 3.5 30.8 1.0
C A:ALA196 3.7 30.5 1.0
C21 A:PTE702 3.7 34.8 1.0
C A:VAL94 3.7 36.3 1.0
O8P A:PTE702 3.8 34.9 1.0
C1 A:PTE702 4.0 32.2 1.0
O4P A:PTE702 4.0 32.0 1.0
CA A:LEU95 4.2 35.7 1.0
N A:GLY198 4.3 32.1 1.0
N A:LEU95 4.4 33.7 1.0
CA A:ALA197 4.4 31.2 1.0
O2P A:PTE702 4.4 30.9 1.0
O6P A:PTE702 4.5 31.8 1.0
N A:ALA197 4.5 31.7 1.0
CG2 A:VAL94 4.5 34.6 1.0
O22 A:PTE702 4.5 31.1 1.0
C22 A:PTE702 4.6 33.5 1.0
CB A:LEU95 4.7 35.7 1.0
O2 A:PTE702 4.7 32.8 1.0
N A:ALA196 4.7 32.0 1.0
CA A:ALA196 4.7 32.8 1.0
N A:VAL94 4.7 36.8 1.0
NZ A:LYS77 4.8 35.5 1.0
CA A:VAL94 4.8 31.6 1.0
N6 A:PTE702 4.8 36.9 1.0
C2 A:PTE702 4.9 32.8 1.0
C A:ALA197 4.9 32.4 1.0

Magnesium binding site 2 out of 6 in 6x1o

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Magnesium binding site 2 out of 6 in the WOR5 From Pyrococcus Furiosus, As Crystallized


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of WOR5 From Pyrococcus Furiosus, As Crystallized within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg704

b:35.1
occ:1.00
O28 A:PTE702 1.9 36.3 1.0
OD2 A:ASP323 2.0 36.4 1.0
OD2 A:ASP326 2.1 35.0 1.0
O A:MET194 2.1 33.3 1.0
O A:HOH859 2.2 33.8 1.0
O A:HOH849 2.2 33.7 1.0
CG A:ASP323 3.0 34.1 1.0
CG A:ASP326 3.1 33.6 1.0
C28 A:PTE702 3.1 34.1 1.0
C A:MET194 3.3 31.9 1.0
OD1 A:ASP326 3.4 32.6 1.0
OD1 A:ASP323 3.4 33.5 1.0
N29 A:PTE702 3.8 33.0 1.0
CB A:MET194 4.1 32.8 1.0
CA A:MET194 4.1 33.1 1.0
C27 A:PTE702 4.2 34.0 1.0
N A:HIS195 4.3 33.6 1.0
CB A:ASP323 4.3 30.5 1.0
N26 A:PTE702 4.4 32.6 1.0
CA A:HIS195 4.4 33.0 1.0
CB A:ASP326 4.4 31.6 1.0
O3P A:PTE702 4.5 30.8 1.0
CE A:MET307 4.6 34.8 1.0
OD1 A:ASP353 4.8 37.9 1.0
CG A:MET194 4.8 40.2 1.0
OD2 A:ASP353 4.9 37.8 1.0
N A:ASP326 4.9 28.0 1.0
CD2 A:LEU329 5.0 35.9 1.0

Magnesium binding site 3 out of 6 in 6x1o

Go back to Magnesium Binding Sites List in 6x1o
Magnesium binding site 3 out of 6 in the WOR5 From Pyrococcus Furiosus, As Crystallized


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of WOR5 From Pyrococcus Furiosus, As Crystallized within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg705

b:37.4
occ:1.00
O8 A:PTE702 2.2 37.6 1.0
O7P A:PTE702 2.3 33.9 1.0
OG1 A:THR470 2.3 37.2 1.0
O A:HOH828 2.3 36.5 1.0
O A:HOH827 2.5 31.6 1.0
O A:HOH830 2.9 42.5 1.0
C8 A:PTE702 3.2 36.8 1.0
CB A:THR470 3.3 37.0 1.0
P2 A:PTE702 3.5 33.5 1.0
CG2 A:THR470 3.7 34.7 1.0
N9 A:PTE702 3.8 37.1 1.0
O6P A:PTE702 3.9 31.8 1.0
O8P A:PTE702 4.2 34.9 1.0
O1G A:PTE702 4.2 33.9 1.0
O A:GLY92 4.3 39.0 1.0
C7 A:PTE702 4.3 37.0 1.0
OD2 A:ASP468 4.3 31.9 1.0
OD1 A:ASP468 4.3 31.1 1.0
N6 A:PTE702 4.5 36.9 1.0
C21 A:PTE702 4.5 34.8 1.0
OD1 A:ASP490 4.6 36.9 1.0
CA A:THR470 4.7 33.3 1.0
CA A:SER93 4.7 35.1 1.0
OD2 A:ASP490 4.7 39.4 1.0
CG2 A:VAL94 4.7 34.6 1.0
CG A:ASP468 4.8 33.8 1.0
N A:VAL94 4.8 36.8 1.0
O5P A:PTE702 4.8 33.4 1.0
C A:THR470 4.9 37.3 1.0
O A:THR470 5.0 38.8 1.0

Magnesium binding site 4 out of 6 in 6x1o

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Magnesium binding site 4 out of 6 in the WOR5 From Pyrococcus Furiosus, As Crystallized


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of WOR5 From Pyrococcus Furiosus, As Crystallized within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg702

b:35.9
occ:1.00
MG1 C:PTE702 0.0 35.9 1.0
O1P C:PTE702 2.0 34.2 1.0
O5P C:PTE702 2.0 33.9 1.0
O1G C:PTE702 2.1 33.1 1.0
O2G C:PTE702 2.1 30.0 1.0
O C:ALA196 2.4 28.7 1.0
O C:VAL94 2.6 31.0 1.0
P2 C:PTE702 3.2 33.1 1.0
P1 C:PTE702 3.3 33.6 1.0
O7P C:PTE702 3.5 34.4 1.0
O3P C:PTE702 3.6 31.7 1.0
C C:ALA196 3.6 29.4 1.0
C C:VAL94 3.7 34.0 1.0
C21 C:PTE702 3.7 33.0 1.0
O8P C:PTE702 3.8 37.0 1.0
O4P C:PTE702 4.0 33.0 1.0
C1 C:PTE702 4.1 31.8 1.0
CA C:LEU95 4.2 33.2 1.0
N C:GLY198 4.3 33.2 1.0
N C:LEU95 4.4 31.1 1.0
O22 C:PTE702 4.4 32.2 1.0
O2P C:PTE702 4.4 30.5 1.0
CA C:ALA197 4.4 30.9 1.0
N C:ALA197 4.5 28.9 1.0
O6P C:PTE702 4.5 33.6 1.0
CG2 C:VAL94 4.5 33.4 1.0
CB C:LEU95 4.6 33.0 1.0
C22 C:PTE702 4.6 34.8 1.0
N C:ALA196 4.6 31.5 1.0
CA C:ALA196 4.7 32.4 1.0
O2 C:PTE702 4.7 29.9 1.0
NZ C:LYS77 4.8 32.9 1.0
N C:VAL94 4.8 34.9 1.0
CA C:VAL94 4.8 32.8 1.0
C C:ALA197 4.9 32.5 1.0
N6 C:PTE702 4.9 34.6 1.0
C2 C:PTE702 5.0 30.1 1.0

Magnesium binding site 5 out of 6 in 6x1o

Go back to Magnesium Binding Sites List in 6x1o
Magnesium binding site 5 out of 6 in the WOR5 From Pyrococcus Furiosus, As Crystallized


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of WOR5 From Pyrococcus Furiosus, As Crystallized within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg704

b:33.9
occ:1.00
O28 C:PTE702 1.9 37.0 1.0
OD2 C:ASP323 1.9 35.0 1.0
OD2 C:ASP326 2.0 32.0 1.0
O C:MET194 2.1 34.9 1.0
O C:HOH844 2.1 34.0 1.0
O C:HOH840 2.2 34.6 1.0
CG C:ASP323 3.0 32.9 1.0
CG C:ASP326 3.0 33.0 1.0
C28 C:PTE702 3.1 34.0 1.0
C C:MET194 3.3 33.7 1.0
OD1 C:ASP323 3.4 32.8 1.0
OD1 C:ASP326 3.5 34.9 1.0
N29 C:PTE702 3.8 34.1 1.0
CB C:MET194 4.0 35.0 1.0
CA C:MET194 4.1 31.1 1.0
C27 C:PTE702 4.2 33.9 1.0
N C:HIS195 4.2 32.1 1.0
CB C:ASP323 4.3 29.0 1.0
N26 C:PTE702 4.3 34.1 1.0
CA C:HIS195 4.4 30.7 1.0
CB C:ASP326 4.4 31.9 1.0
O3P C:PTE702 4.5 31.7 1.0
CE C:MET307 4.6 34.9 1.0
OD1 C:ASP353 4.6 38.9 1.0
CG C:MET194 4.7 33.6 1.0
OD2 C:ASP353 4.8 37.7 1.0
CD2 C:LEU329 4.9 35.8 1.0
N C:ASP326 5.0 27.2 1.0

Magnesium binding site 6 out of 6 in 6x1o

Go back to Magnesium Binding Sites List in 6x1o
Magnesium binding site 6 out of 6 in the WOR5 From Pyrococcus Furiosus, As Crystallized


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of WOR5 From Pyrococcus Furiosus, As Crystallized within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg705

b:38.0
occ:1.00
O8 C:PTE702 2.3 32.9 1.0
O C:HOH834 2.3 33.2 1.0
O7P C:PTE702 2.3 34.4 1.0
OG1 C:THR470 2.3 34.7 1.0
O C:HOH832 2.4 30.9 1.0
C8 C:PTE702 3.3 35.0 1.0
CB C:THR470 3.3 33.1 1.0
P2 C:PTE702 3.5 33.1 1.0
CG2 C:THR470 3.8 32.7 1.0
N9 C:PTE702 3.9 33.2 1.0
O6P C:PTE702 3.9 33.6 1.0
O8P C:PTE702 4.1 37.0 1.0
OD2 C:ASP468 4.2 30.7 1.0
OD1 C:ASP468 4.3 31.3 1.0
O C:GLY92 4.3 39.3 1.0
O1G C:PTE702 4.3 33.1 1.0
C7 C:PTE702 4.4 33.9 1.0
C21 C:PTE702 4.5 33.0 1.0
N6 C:PTE702 4.6 34.6 1.0
OD1 C:ASP490 4.6 36.4 1.0
CA C:THR470 4.6 34.1 1.0
OD2 C:ASP490 4.6 41.2 1.0
CG C:ASP468 4.7 32.3 1.0
C C:THR470 4.8 34.2 1.0
CG2 C:VAL94 4.8 33.4 1.0
O C:THR470 4.8 35.5 1.0
CA C:SER93 4.9 35.1 1.0
O5P C:PTE702 4.9 33.9 1.0
N C:VAL94 4.9 34.9 1.0

Reference:

L.G.Mathew, W.N.Lanzilotta. A Novel Function For WOR5 Revealed Through in Situ Crystallography and Biochemical Analysis To Be Published.
Page generated: Thu Nov 25 09:58:45 2021

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