Atomistry » Magnesium » PDB 5osf-5p9r » 5oxt
Atomistry »
  Magnesium »
    PDB 5osf-5p9r »
      5oxt »

Magnesium in PDB 5oxt: Direct-Evolutioned Unspecific Peroxygenase From Agrocybe Aegerita, in Complex with Acetate

Enzymatic activity of Direct-Evolutioned Unspecific Peroxygenase From Agrocybe Aegerita, in Complex with Acetate

All present enzymatic activity of Direct-Evolutioned Unspecific Peroxygenase From Agrocybe Aegerita, in Complex with Acetate:
1.11.2.1;

Protein crystallography data

The structure of Direct-Evolutioned Unspecific Peroxygenase From Agrocybe Aegerita, in Complex with Acetate, PDB code: 5oxt was solved by M.Ramirez-Escudero, J.Sanz-Aparicio, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 45.23 / 1.42
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 64.999, 99.151, 83.890, 90.00, 103.27, 90.00
R / Rfree (%) 15 / 16.4

Other elements in 5oxt:

The structure of Direct-Evolutioned Unspecific Peroxygenase From Agrocybe Aegerita, in Complex with Acetate also contains other interesting chemical elements:

Iron (Fe) 3 atoms
Chlorine (Cl) 3 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Direct-Evolutioned Unspecific Peroxygenase From Agrocybe Aegerita, in Complex with Acetate (pdb code 5oxt). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the Direct-Evolutioned Unspecific Peroxygenase From Agrocybe Aegerita, in Complex with Acetate, PDB code: 5oxt:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in 5oxt

Go back to Magnesium Binding Sites List in 5oxt
Magnesium binding site 1 out of 3 in the Direct-Evolutioned Unspecific Peroxygenase From Agrocybe Aegerita, in Complex with Acetate


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Direct-Evolutioned Unspecific Peroxygenase From Agrocybe Aegerita, in Complex with Acetate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg1001

b:4.8
occ:1.00
 O A:HOH1293 2.1 6.9 1.0
OE2 A:GLU122 2.1 6.6 1.0
O A:GLY123 2.1 6.2 1.0
O A:HOH1221 2.1 6.2 1.0
OG A:SER126 2.1 6.3 1.0
O1A A:HEM1000 2.2 5.6 1.0
CD A:GLU122 3.1 6.6 1.0
CGA A:HEM1000 3.2 5.5 1.0
C A:GLY123 3.2 6.4 1.0
O2A A:HEM1000 3.3 5.8 1.0
CB A:SER126 3.4 6.5 1.0
N A:GLY123 3.6 6.3 1.0
CG A:GLU122 3.6 6.6 1.0
CA A:GLY123 3.9 6.4 1.0
O A:HOH1266 4.0 7.4 1.0
O A:HOH1253 4.1 6.0 1.0
OE1 A:GLU122 4.2 6.9 1.0
O A:HOH1110 4.2 6.3 1.0
N A:ASP124 4.3 6.5 1.0
O A:ASN137 4.3 8.0 1.0
NH2 A:ARG189 4.3 6.5 1.0
N A:SER126 4.4 6.5 1.0
CA A:SER126 4.4 6.7 1.0
CBA A:HEM1000 4.5 5.5 1.0
C A:GLU122 4.6 6.5 1.0
CA A:ASP124 4.6 6.8 1.0
O A:GLY130 4.7 7.2 1.0
CZ A:ARG189 4.8 6.5 1.0
C A:ASP124 4.8 6.8 1.0
CB A:ARG129 4.8 7.1 1.0
CB A:GLU122 4.8 6.5 1.0
CA A:GLU122 4.9 6.6 1.0
CAA A:HEM1000 4.9 5.5 1.0
O A:ASP124 5.0 6.7 1.0
CB A:ASN137 5.0 8.2 1.0

Magnesium binding site 2 out of 3 in 5oxt

Go back to Magnesium Binding Sites List in 5oxt
Magnesium binding site 2 out of 3 in the Direct-Evolutioned Unspecific Peroxygenase From Agrocybe Aegerita, in Complex with Acetate


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Direct-Evolutioned Unspecific Peroxygenase From Agrocybe Aegerita, in Complex with Acetate within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg403

b:5.4
occ:1.00
 O B:HOH682 2.0 7.7 1.0
OE2 B:GLU122 2.1 7.4 1.0
O B:GLY123 2.1 6.8 1.0
O B:HOH569 2.1 6.8 1.0
OG B:SER126 2.1 6.8 1.0
O1A B:HEM402 2.3 6.2 1.0
CD B:GLU122 3.1 7.5 1.0
CGA B:HEM402 3.2 6.3 1.0
C B:GLY123 3.2 6.8 1.0
CB B:SER126 3.3 6.9 1.0
O2A B:HEM402 3.4 6.4 1.0
N B:GLY123 3.6 7.0 1.0
CG B:GLU122 3.6 7.4 1.0
CA B:GLY123 3.9 6.9 1.0
O B:HOH626 4.0 7.9 1.0
O B:HOH631 4.1 6.8 1.0
OE1 B:GLU122 4.2 7.6 1.0
O B:HOH505 4.2 7.2 1.0
O B:ASN137 4.3 9.5 1.0
N B:ASP124 4.3 6.9 1.0
NH2 B:ARG189 4.4 6.8 1.0
CA B:SER126 4.4 7.0 1.0
N B:SER126 4.4 6.9 1.0
CBA B:HEM402 4.6 6.2 1.0
C B:GLU122 4.6 7.2 1.0
CA B:ASP124 4.6 7.2 1.0
O B:GLY130 4.7 7.9 1.0
CB B:ARG129 4.8 8.0 1.0
CZ B:ARG189 4.8 6.9 1.0
C B:ASP124 4.8 7.1 1.0
CB B:GLU122 4.8 7.3 1.0
CA B:GLU122 4.9 7.3 1.0
CAA B:HEM402 5.0 6.2 1.0
O B:ASP124 5.0 7.1 1.0
CB B:ASN137 5.0 9.5 1.0

Magnesium binding site 3 out of 3 in 5oxt

Go back to Magnesium Binding Sites List in 5oxt
Magnesium binding site 3 out of 3 in the Direct-Evolutioned Unspecific Peroxygenase From Agrocybe Aegerita, in Complex with Acetate


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Direct-Evolutioned Unspecific Peroxygenase From Agrocybe Aegerita, in Complex with Acetate within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg1001

b:6.9
occ:1.00
 O C:HOH1272 2.0 8.4 1.0
OE2 C:GLU122 2.1 8.7 1.0
O C:HOH1194 2.1 8.7 1.0
O C:GLY123 2.1 8.2 1.0
OG C:SER126 2.1 8.7 1.0
O1A C:HEM1000 2.3 7.4 1.0
CD C:GLU122 3.1 8.8 1.0
CGA C:HEM1000 3.2 7.3 1.0
C C:GLY123 3.2 8.5 1.0
CB C:SER126 3.3 8.7 1.0
O2A C:HEM1000 3.4 7.4 1.0
CG C:GLU122 3.6 8.7 1.0
N C:GLY123 3.6 8.3 1.0
CA C:GLY123 4.0 8.4 1.0
O C:HOH1240 4.0 10.1 1.0
O C:HOH1275 4.1 7.6 1.0
OE1 C:GLU122 4.2 9.2 1.0
O C:HOH1105 4.2 9.4 1.0
O C:ASN137 4.3 11.6 1.0
N C:ASP124 4.3 8.8 1.0
NH2 C:ARG189 4.4 8.3 1.0
CA C:SER126 4.4 9.1 1.0
N C:SER126 4.4 8.9 1.0
CBA C:HEM1000 4.6 7.2 1.0
C C:GLU122 4.6 8.5 1.0
CA C:ASP124 4.6 9.4 1.0
O C:GLY130 4.7 10.0 1.0
CB C:ARG129 4.8 10.1 1.0
CZ C:ARG189 4.8 8.5 1.0
CB C:GLU122 4.8 8.6 1.0
C C:ASP124 4.8 9.2 1.0
CA C:GLU122 4.9 8.6 1.0
CAA C:HEM1000 4.9 7.2 1.0
CB C:ASN137 5.0 11.3 1.0
O C:ASP124 5.0 9.3 1.0

Reference:

M.Ramirez-Escudero, J.Sanz-Aparicio. Direct-Evolutioned Unspecific Peroxygenase From Agrocybe Aegerita, in Complex with Acetate To Be Published.
Page generated: Mon Dec 14 21:02:11 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy