Magnesium in PDB 8b1n: Crystal Structure of Trmd-TM1570 From Calditerrivibrio Nitroreducens in Complex with S-Adenosyl-L-Methionine

Enzymatic activity of Crystal Structure of Trmd-TM1570 From Calditerrivibrio Nitroreducens in Complex with S-Adenosyl-L-Methionine

All present enzymatic activity of Crystal Structure of Trmd-TM1570 From Calditerrivibrio Nitroreducens in Complex with S-Adenosyl-L-Methionine:
2.1.1.228;

Protein crystallography data

The structure of Crystal Structure of Trmd-TM1570 From Calditerrivibrio Nitroreducens in Complex with S-Adenosyl-L-Methionine, PDB code: 8b1n was solved by A.Kluza, I.Lewandowska, R.Augustyniak, J.Sulkowska, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 48.92 / 2.00
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 96.78, 199.56, 56.7, 90, 90, 90
R / Rfree (%) 16.9 / 20.9

Other elements in 8b1n:

The structure of Crystal Structure of Trmd-TM1570 From Calditerrivibrio Nitroreducens in Complex with S-Adenosyl-L-Methionine also contains other interesting chemical elements:

Chlorine (Cl) 4 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of Trmd-TM1570 From Calditerrivibrio Nitroreducens in Complex with S-Adenosyl-L-Methionine (pdb code 8b1n). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Crystal Structure of Trmd-TM1570 From Calditerrivibrio Nitroreducens in Complex with S-Adenosyl-L-Methionine, PDB code: 8b1n:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 8b1n

Go back to Magnesium Binding Sites List in 8b1n
Magnesium binding site 1 out of 2 in the Crystal Structure of Trmd-TM1570 From Calditerrivibrio Nitroreducens in Complex with S-Adenosyl-L-Methionine


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 Trmd-TM1570 From Calditerrivibrio Nitroreducens in Complex with S-Adenosyl-L-Methionine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg501

b:41.6
occ:1.00
 OE1 A:GLU168 2.0 52.1 1.0
OE2 A:GLU176 2.2 34.8 1.0
O B:HOH611 2.3 35.8 1.0
O A:HOH739 2.3 39.3 1.0
O A:GLU167 2.3 37.5 1.0
OE1 B:GLU115 2.7 45.0 1.0
CD A:GLU176 3.1 32.2 1.0
CD A:GLU168 3.1 50.1 1.0
OE1 A:GLU176 3.3 36.9 1.0
OE2 B:GLU115 3.3 58.0 1.0
CD B:GLU115 3.4 51.4 1.0
C A:GLU167 3.4 36.7 1.0
N B:SAM504 3.7 28.4 1.0
CG A:GLU168 3.8 45.8 1.0
CA A:GLU168 3.9 30.4 1.0
N A:GLU168 4.0 32.6 1.0
OE2 A:GLU168 4.1 33.7 1.0
ND2 A:ASN163 4.1 45.5 1.0
O B:HOH734 4.1 43.8 1.0
O A:SER164 4.3 45.7 1.0
O B:SAM504 4.4 23.1 1.0
CB A:GLU168 4.4 28.7 1.0
CG A:GLU176 4.5 30.9 1.0
O A:HOH785 4.5 40.1 1.0
CE1 A:HIS179 4.6 37.6 1.0
CA A:GLU167 4.7 31.9 1.0
NE2 A:HIS179 4.8 34.3 1.0
CB A:GLU167 4.8 49.3 1.0
CG B:GLU115 4.9 48.0 1.0
OH A:TYR177 5.0 36.4 1.0
CA B:SAM504 5.0 28.8 1.0

Magnesium binding site 2 out of 2 in 8b1n

Go back to Magnesium Binding Sites List in 8b1n
Magnesium binding site 2 out of 2 in the Crystal Structure of Trmd-TM1570 From Calditerrivibrio Nitroreducens in Complex with S-Adenosyl-L-Methionine


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 Trmd-TM1570 From Calditerrivibrio Nitroreducens in Complex with S-Adenosyl-L-Methionine within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg501

b:46.3
occ:1.00
 OE1 B:GLU168 2.1 60.9 1.0
OE2 B:GLU176 2.2 36.8 1.0
O B:HOH603 2.3 46.0 1.0
O B:GLU167 2.3 45.1 1.0
OE1 A:GLU115 2.8 42.4 1.0
CD B:GLU176 3.1 38.8 1.0
CD B:GLU168 3.2 48.7 1.0
OE1 B:GLU176 3.3 34.6 1.0
C B:GLU167 3.5 40.3 1.0
OE2 A:GLU115 3.5 64.9 1.0
CD A:GLU115 3.5 54.1 1.0
N A:SAM505 3.7 27.0 1.0
CG B:GLU168 3.8 47.0 1.0
CA B:GLU168 3.9 31.6 1.0
O B:SER164 4.1 38.4 1.0
N B:GLU168 4.1 34.1 1.0
OE2 B:GLU168 4.1 42.9 1.0
ND2 B:ASN163 4.2 48.2 1.0
CB B:GLU168 4.4 31.1 1.0
O B:HOH732 4.5 34.8 1.0
O A:SAM505 4.5 30.2 1.0
CG B:GLU176 4.5 36.3 1.0
CE1 B:HIS179 4.6 40.8 1.0
CA B:GLU167 4.7 41.6 1.0
CB B:GLU167 4.8 48.2 1.0
NE2 B:HIS179 4.8 38.2 1.0
OH B:TYR177 4.9 34.5 1.0
CA A:SAM505 5.0 33.2 1.0

Reference:

J.Sulkowska, A.Kluza, I.Lewandowska, R.Augustyniak, J.Sulkowska. N/A N/A.
Page generated: Fri Apr 7 06:08:54 2023

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