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Magnesium in PDB 1vrg: Crystal Structure of Propionyl-Coa Carboxylase, Beta Subunit (TM0716) From Thermotoga Maritima at 2.30 A Resolution

Enzymatic activity of Crystal Structure of Propionyl-Coa Carboxylase, Beta Subunit (TM0716) From Thermotoga Maritima at 2.30 A Resolution

All present enzymatic activity of Crystal Structure of Propionyl-Coa Carboxylase, Beta Subunit (TM0716) From Thermotoga Maritima at 2.30 A Resolution:
6.4.1.2;

Protein crystallography data

The structure of Crystal Structure of Propionyl-Coa Carboxylase, Beta Subunit (TM0716) From Thermotoga Maritima at 2.30 A Resolution, PDB code: 1vrg was solved by Joint Center For Structural Genomics (Jcsg), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 45.36 / 2.30
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 113.922, 162.210, 187.117, 90.00, 90.00, 90.00
R / Rfree (%) 15.4 / 21

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of Propionyl-Coa Carboxylase, Beta Subunit (TM0716) From Thermotoga Maritima at 2.30 A Resolution (pdb code 1vrg). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the Crystal Structure of Propionyl-Coa Carboxylase, Beta Subunit (TM0716) From Thermotoga Maritima at 2.30 A Resolution, PDB code: 1vrg:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in 1vrg

Go back to Magnesium Binding Sites List in 1vrg
Magnesium binding site 1 out of 3 in the Crystal Structure of Propionyl-Coa Carboxylase, Beta Subunit (TM0716) From Thermotoga Maritima at 2.30 A Resolution


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 Propionyl-Coa Carboxylase, Beta Subunit (TM0716) From Thermotoga Maritima at 2.30 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg516

b:23.2
occ:1.00
 O D:HOH739 1.7 32.3 1.0
O D:HOH744 2.1 36.0 1.0
O D:HOH712 2.1 38.8 1.0
NE2 A:HIS379 2.3 32.8 1.0
NE2 D:HIS379 2.3 30.7 1.0
O D:HOH665 2.3 36.0 1.0
CD2 A:HIS379 3.2 27.4 1.0
CD2 D:HIS379 3.2 33.6 1.0
CE1 A:HIS379 3.3 30.5 1.0
CE1 D:HIS379 3.3 30.4 1.0
OD2 D:ASP340 4.1 52.1 1.0
NZ D:LYS382 4.2 43.3 1.0
NZ A:LYS382 4.2 40.4 1.0
OD2 A:ASP340 4.3 50.5 1.0
CG A:HIS379 4.4 30.1 1.0
ND1 A:HIS379 4.4 34.9 1.0
CG D:HIS379 4.4 26.8 1.0
ND1 D:HIS379 4.4 31.3 1.0
O D:HOH589 4.5 34.9 1.0
NH1 A:ARG378 4.5 38.4 1.0
O D:HOH630 4.8 33.0 1.0
OD1 D:ASP340 4.9 54.4 1.0
CG D:ASP340 4.9 45.4 1.0
O D:LEU515 4.9 49.4 1.0
O A:HOH577 5.0 34.5 1.0

Magnesium binding site 2 out of 3 in 1vrg

Go back to Magnesium Binding Sites List in 1vrg
Magnesium binding site 2 out of 3 in the Crystal Structure of Propionyl-Coa Carboxylase, Beta Subunit (TM0716) From Thermotoga Maritima at 2.30 A Resolution


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 Propionyl-Coa Carboxylase, Beta Subunit (TM0716) From Thermotoga Maritima at 2.30 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg516

b:18.3
occ:1.00
 O B:HOH749 1.7 38.8 1.0
O E:HOH774 1.9 31.7 1.0
O B:HOH652 2.1 38.5 1.0
O B:HOH620 2.2 35.8 1.0
NE2 E:HIS379 2.2 32.1 1.0
NE2 B:HIS379 2.3 33.5 1.0
CD2 E:HIS379 3.2 30.2 1.0
CE1 E:HIS379 3.2 32.3 1.0
CD2 B:HIS379 3.3 29.8 1.0
CE1 B:HIS379 3.3 31.4 1.0
OD2 B:ASP340 4.0 50.9 1.0
NZ B:LYS382 4.1 42.9 1.0
NZ E:LYS382 4.1 40.5 1.0
OD2 E:ASP340 4.2 50.7 1.0
CG E:HIS379 4.3 28.7 1.0
ND1 E:HIS379 4.3 31.7 1.0
ND1 B:HIS379 4.4 33.5 1.0
CG B:HIS379 4.5 28.5 1.0
NH1 E:ARG378 4.5 42.5 1.0
O B:HOH634 4.6 31.6 1.0
O B:HOH752 4.6 43.1 1.0
O E:HOH601 4.7 35.2 1.0
O B:LEU515 4.9 48.0 1.0
CG B:ASP340 4.9 43.4 1.0
OD1 B:ASP340 4.9 53.2 1.0
OD1 E:ASP340 4.9 53.2 1.0
NH1 B:ARG378 4.9 40.8 1.0
O E:LEU515 5.0 48.8 1.0

Magnesium binding site 3 out of 3 in 1vrg

Go back to Magnesium Binding Sites List in 1vrg
Magnesium binding site 3 out of 3 in the Crystal Structure of Propionyl-Coa Carboxylase, Beta Subunit (TM0716) From Thermotoga Maritima at 2.30 A Resolution


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Crystal Structure of Propionyl-Coa Carboxylase, Beta Subunit (TM0716) From Thermotoga Maritima at 2.30 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg516

b:24.7
occ:1.00
 O F:HOH679 1.9 36.0 1.0
O F:HOH656 1.9 53.1 1.0
O C:HOH598 2.1 35.2 1.0
O C:HOH699 2.3 34.8 1.0
NE2 C:HIS379 2.3 31.2 1.0
NE2 F:HIS379 2.4 30.6 1.0
CD2 C:HIS379 3.1 29.2 1.0
CE1 F:HIS379 3.3 31.3 1.0
CD2 F:HIS379 3.3 31.8 1.0
CE1 C:HIS379 3.3 32.1 1.0
OD2 C:ASP340 4.0 52.4 1.0
NZ C:LYS382 4.2 40.6 1.0
NZ F:LYS382 4.2 43.9 1.0
OD2 F:ASP340 4.3 52.4 1.0
CG C:HIS379 4.3 31.1 1.0
ND1 C:HIS379 4.4 32.5 1.0
ND1 F:HIS379 4.4 33.6 1.0
CG F:HIS379 4.5 31.9 1.0
O F:HOH585 4.6 27.5 1.0
O C:HOH577 4.6 29.6 1.0
O C:LEU515 4.7 47.1 1.0
NH1 F:ARG378 4.7 39.0 1.0
CG C:ASP340 4.9 46.4 1.0
OD1 C:ASP340 4.9 54.1 1.0
NH1 C:ARG378 4.9 37.1 1.0

Reference:

Joint Center For Structural Genomics (Jcsg), Joint Center For Structural Genomics (Jcsg). N/A N/A.
Page generated: Sun Aug 10 06:16:49 2025

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