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Magnesium in PDB 6k83: Structure of RGLG1 Mutant-D207G

Enzymatic activity of Structure of RGLG1 Mutant-D207G

All present enzymatic activity of Structure of RGLG1 Mutant-D207G:
2.3.2.27;

Protein crystallography data

The structure of Structure of RGLG1 Mutant-D207G, PDB code: 6k83 was solved by Q.Wang, Y.Wu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 46.51 / 2.39
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 141.120, 42.180, 243.440, 90.00, 91.08, 90.00
R / Rfree (%) 20.5 / 26.8

Other elements in 6k83:

The structure of Structure of RGLG1 Mutant-D207G also contains other interesting chemical elements:

Calcium (Ca) 24 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Structure of RGLG1 Mutant-D207G (pdb code 6k83). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 8 binding sites of Magnesium where determined in the Structure of RGLG1 Mutant-D207G, PDB code: 6k83:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Magnesium binding site 1 out of 8 in 6k83

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Magnesium binding site 1 out of 8 in the Structure of RGLG1 Mutant-D207G


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of RGLG1 Mutant-D207G within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg501

b:24.5
occ:1.00
 OG B:SER166 2.0 36.8 1.0
OE2 C:GLU153 2.1 41.8 1.0
OG1 B:THR258 2.2 37.6 1.0
O B:HOH604 2.3 36.4 1.0
OG1 B:THR164 2.6 38.4 1.0
CB B:SER166 3.0 32.1 1.0
CD C:GLU153 3.0 40.2 1.0
CB B:THR164 3.3 39.4 1.0
OE1 C:GLU153 3.4 39.8 1.0
CB B:THR258 3.4 37.7 1.0
O B:GLN288 3.5 36.3 1.0
N B:SER166 3.9 38.0 1.0
CG2 B:THR258 4.0 37.6 1.0
CA B:SER166 4.0 36.6 1.0
CG2 B:THR164 4.0 39.3 1.0
OD1 B:ASP286 4.1 38.2 1.0
OD2 B:ASP286 4.2 34.7 1.0
CG C:GLU153 4.3 32.0 1.0
CB B:GLN288 4.3 38.0 1.0
C B:GLN288 4.5 37.6 1.0
OD2 B:ASP162 4.6 40.6 1.0
CA B:THR164 4.6 30.7 1.0
CG B:ASP286 4.6 40.7 1.0
C B:THR164 4.6 41.1 1.0
CA B:THR258 4.6 32.1 1.0
OD1 B:ASP162 4.7 38.9 1.0
N B:LYS165 4.7 33.4 1.0
N B:THR258 4.9 40.3 1.0
CA B:GLN288 4.9 35.5 1.0
C B:SER166 5.0 36.4 1.0

Magnesium binding site 2 out of 8 in 6k83

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Magnesium binding site 2 out of 8 in the Structure of RGLG1 Mutant-D207G


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of RGLG1 Mutant-D207G within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg501

b:34.9
occ:1.00
 OG A:SER166 1.9 37.0 1.0
OE2 B:GLU153 1.9 37.3 1.0
OG1 A:THR164 2.2 36.8 1.0
OG1 A:THR258 2.2 37.9 1.0
CD B:GLU153 3.0 40.0 1.0
CB A:SER166 3.1 30.5 1.0
CB A:THR164 3.1 35.1 1.0
OE1 B:GLU153 3.4 39.3 1.0
CB A:THR258 3.4 36.3 1.0
O A:GLN288 3.7 34.6 1.0
N A:SER166 3.8 28.1 1.0
CG2 A:THR258 3.8 34.7 1.0
CG2 A:THR164 3.9 32.3 1.0
CA A:SER166 4.0 30.3 1.0
OD1 A:ASP286 4.1 38.4 1.0
OD2 A:ASP286 4.3 44.7 1.0
CG B:GLU153 4.3 39.3 1.0
CA A:THR164 4.3 29.5 1.0
C A:THR164 4.4 33.1 1.0
OD1 A:ASP162 4.4 46.1 1.0
CB A:GLN288 4.5 39.6 1.0
O A:THR164 4.6 37.1 1.0
OD2 A:ASP162 4.6 41.0 1.0
CG A:ASP286 4.6 40.5 1.0
CA A:THR258 4.6 31.1 1.0
N A:LYS165 4.7 38.2 1.0
C A:GLN288 4.7 35.5 1.0
C A:SER166 4.9 33.1 1.0
CG A:ASP162 4.9 33.1 1.0
C A:LYS165 5.0 35.2 1.0

Magnesium binding site 3 out of 8 in 6k83

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Magnesium binding site 3 out of 8 in the Structure of RGLG1 Mutant-D207G


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Structure of RGLG1 Mutant-D207G within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg501

b:31.6
occ:1.00
 OE2 D:GLU153 2.1 35.7 1.0
O C:HOH622 2.2 40.1 1.0
OG C:SER166 2.2 32.6 1.0
OG1 C:THR258 2.2 40.5 1.0
OG1 C:THR164 2.4 37.8 1.0
CD D:GLU153 3.1 37.0 1.0
CB C:SER166 3.2 32.7 1.0
CB C:THR164 3.3 39.0 1.0
CB C:THR258 3.3 38.5 1.0
O C:GLN288 3.3 40.4 1.0
OE1 D:GLU153 3.3 37.2 1.0
CG2 C:THR258 3.6 30.6 1.0
CG2 C:THR164 3.9 34.4 1.0
N C:SER166 4.0 32.7 1.0
OD1 C:ASP286 4.1 33.1 1.0
CA C:SER166 4.2 37.9 1.0
CB C:GLN288 4.2 37.4 1.0
C C:GLN288 4.3 42.2 1.0
OD2 C:ASP162 4.4 40.5 1.0
CG D:GLU153 4.4 40.1 1.0
OD2 C:ASP286 4.4 39.8 1.0
OD1 C:ASP162 4.5 37.4 1.0
CA C:THR258 4.6 39.7 1.0
CA C:THR164 4.6 36.2 1.0
CG C:ASP286 4.7 36.4 1.0
C C:THR164 4.7 35.2 1.0
CA C:GLN288 4.8 34.6 1.0
N C:LYS165 4.8 34.0 1.0
CG C:ASP162 4.9 37.6 1.0
N C:THR258 4.9 36.1 1.0

Magnesium binding site 4 out of 8 in 6k83

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Magnesium binding site 4 out of 8 in the Structure of RGLG1 Mutant-D207G


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Structure of RGLG1 Mutant-D207G within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg501

b:31.7
occ:1.00
 OG1 D:THR164 2.0 36.6 1.0
OG1 D:THR258 2.2 37.2 1.0
OG D:SER166 2.3 37.2 1.0
CB D:THR164 2.9 34.7 1.0
CB D:THR258 3.4 34.9 1.0
CB D:SER166 3.4 35.8 1.0
CG2 D:THR164 3.5 29.4 1.0
CG2 D:THR258 3.7 33.6 1.0
O D:GLN288 3.7 35.3 1.0
OD1 D:ASP286 3.8 41.9 1.0
OD2 D:ASP162 3.8 46.2 1.0
OD1 D:ASP162 4.1 36.6 1.0
N D:SER166 4.1 35.2 1.0
CA D:THR164 4.2 30.8 1.0
OD2 D:ASP286 4.3 37.4 1.0
CA D:SER166 4.3 39.9 1.0
CG D:ASP162 4.4 37.5 1.0
C D:THR164 4.4 36.1 1.0
CG D:ASP286 4.5 39.1 1.0
C D:GLN288 4.5 36.0 1.0
CA D:THR258 4.6 34.4 1.0
CB D:GLN288 4.6 36.8 1.0
O D:THR164 4.8 32.5 1.0
N D:LYS165 4.8 35.0 1.0
N D:THR164 4.9 30.3 1.0
N D:ASN167 4.9 32.0 1.0
N D:THR258 5.0 32.7 1.0
CA D:GLN288 5.0 37.9 1.0

Magnesium binding site 5 out of 8 in 6k83

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Magnesium binding site 5 out of 8 in the Structure of RGLG1 Mutant-D207G


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Structure of RGLG1 Mutant-D207G within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mg501

b:34.4
occ:1.00
 OG1 E:THR258 2.2 39.3 1.0
O G:HOH613 2.3 33.0 1.0
OG E:SER166 2.3 34.9 1.0
OE2 G:GLU153 2.3 38.4 1.0
OG1 E:THR164 2.4 40.0 1.0
CB E:THR164 3.0 36.8 1.0
CB E:THR258 3.3 34.8 1.0
CD G:GLU153 3.3 38.3 1.0
CB E:SER166 3.3 36.4 1.0
CG2 E:THR258 3.4 33.0 1.0
CG2 E:THR164 3.5 32.9 1.0
O E:GLN288 3.5 37.9 1.0
OE1 G:GLU153 3.6 35.2 1.0
OD1 E:ASP286 3.9 41.2 1.0
OD2 E:ASP286 4.1 40.5 1.0
OD2 E:ASP162 4.1 41.0 1.0
N E:SER166 4.1 35.5 1.0
OD1 E:ASP162 4.3 38.7 1.0
CA E:SER166 4.3 34.0 1.0
CB E:GLN288 4.4 40.0 1.0
CG E:ASP286 4.4 40.8 1.0
CA E:THR164 4.4 37.9 1.0
C E:GLN288 4.4 37.9 1.0
CA E:THR258 4.5 34.2 1.0
CG E:ASP162 4.7 38.3 1.0
CG G:GLU153 4.7 38.4 1.0
C E:THR164 4.8 39.7 1.0
N E:LYS165 4.8 35.5 1.0
CA E:GLN288 4.9 40.3 1.0

Magnesium binding site 6 out of 8 in 6k83

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Magnesium binding site 6 out of 8 in the Structure of RGLG1 Mutant-D207G


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Structure of RGLG1 Mutant-D207G within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Mg501

b:28.1
occ:1.00
 OG1 F:THR258 2.2 37.7 1.0
OG F:SER166 2.3 31.4 1.0
OG1 F:THR164 2.4 39.9 1.0
CB F:THR164 3.1 33.3 1.0
CB F:SER166 3.2 29.4 1.0
CB F:THR258 3.3 34.0 1.0
CG2 F:THR258 3.4 35.0 1.0
O F:GLN288 3.6 39.6 1.0
CG2 F:THR164 3.8 28.5 1.0
OD1 F:ASP286 3.9 35.3 1.0
OD2 F:ASP162 3.9 44.7 1.0
OD2 F:ASP286 4.0 31.7 1.0
N F:SER166 4.1 32.1 1.0
CB F:GLN288 4.2 37.4 1.0
CA F:SER166 4.3 35.8 1.0
CG F:ASP286 4.4 33.4 1.0
OD1 F:ASP162 4.4 35.2 1.0
CA F:THR164 4.4 32.3 1.0
C F:GLN288 4.5 37.8 1.0
CA F:THR258 4.5 33.9 1.0
CG F:ASP162 4.6 37.7 1.0
C F:THR164 4.6 33.1 1.0
CA F:GLN288 4.8 39.1 1.0
N F:LYS165 4.9 35.5 1.0
N F:THR258 4.9 34.5 1.0

Magnesium binding site 7 out of 8 in 6k83

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Magnesium binding site 7 out of 8 in the Structure of RGLG1 Mutant-D207G


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Structure of RGLG1 Mutant-D207G within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Mg501

b:36.8
occ:1.00
 OG1 G:THR164 2.0 35.1 1.0
O G:HOH620 2.1 41.0 1.0
OG1 G:THR258 2.1 39.0 1.0
CB G:THR164 2.7 35.9 1.0
OG G:SER166 3.1 37.9 1.0
CG2 G:THR164 3.4 37.2 1.0
CB G:SER166 3.4 39.4 1.0
CB G:THR258 3.4 43.7 1.0
O G:GLN288 3.5 45.5 1.0
CG2 G:THR258 3.8 39.1 1.0
N G:SER166 4.0 36.1 1.0
CA G:THR164 4.1 37.1 1.0
OD1 G:ASP286 4.2 38.9 1.0
C G:THR164 4.3 39.8 1.0
CA G:SER166 4.3 38.3 1.0
OD1 G:ASP162 4.3 43.8 1.0
OD2 G:ASP162 4.3 48.2 1.0
OD2 G:ASP286 4.3 38.9 1.0
N G:LYS165 4.5 39.1 1.0
CB G:GLN288 4.6 37.2 1.0
CA G:THR258 4.6 42.3 1.0
C G:GLN288 4.6 42.8 1.0
CG G:ASP286 4.7 41.3 1.0
O G:THR164 4.7 37.5 1.0
CG G:ASP162 4.7 43.2 1.0
N G:THR164 4.9 38.6 1.0
N G:THR258 4.9 40.0 1.0
O G:ALA255 5.0 39.9 1.0

Magnesium binding site 8 out of 8 in 6k83

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Magnesium binding site 8 out of 8 in the Structure of RGLG1 Mutant-D207G


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Structure of RGLG1 Mutant-D207G within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Mg501

b:28.3
occ:1.00
 OG1 H:THR258 2.0 40.6 1.0
OG H:SER166 2.0 41.6 1.0
OE2 E:GLU153 2.0 34.7 1.0
O H:HOH620 2.1 29.1 1.0
OG1 H:THR164 2.2 35.8 1.0
CD E:GLU153 3.0 38.3 1.0
CB H:SER166 3.1 35.9 1.0
CB H:THR164 3.1 35.7 1.0
CB H:THR258 3.3 40.9 1.0
OE1 E:GLU153 3.4 40.6 1.0
O H:GLN288 3.5 43.6 1.0
CG2 H:THR258 3.8 35.3 1.0
CG2 H:THR164 3.8 27.3 1.0
N H:SER166 4.0 39.6 1.0
CA H:SER166 4.2 38.9 1.0
OD1 H:ASP286 4.3 39.4 1.0
OD2 H:ASP162 4.3 40.2 1.0
CG E:GLU153 4.3 40.6 1.0
CA H:THR258 4.4 38.4 1.0
CA H:THR164 4.4 37.7 1.0
C H:GLN288 4.5 40.6 1.0
CB H:GLN288 4.5 36.2 1.0
C H:THR164 4.5 35.5 1.0
OD2 H:ASP286 4.5 37.9 1.0
OD1 H:ASP162 4.6 39.8 1.0
N H:THR258 4.7 37.0 1.0
N H:LYS165 4.8 40.3 1.0
O H:THR164 4.9 38.5 1.0
CG H:ASP286 4.9 38.1 1.0
CG H:ASP162 4.9 37.3 1.0
CA H:GLN288 5.0 33.6 1.0

Reference:

Q.Wang, Y.Wu. RGLG1 Mutant-D207G To Be Published.
Page generated: Tue Oct 1 06:47:30 2024

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