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Magnesium in PDB 7zbp: Unspecific Peroxygenase From Marasmius Rotula

Enzymatic activity of Unspecific Peroxygenase From Marasmius Rotula

All present enzymatic activity of Unspecific Peroxygenase From Marasmius Rotula:
1.11.2.1;

Protein crystallography data

The structure of Unspecific Peroxygenase From Marasmius Rotula, PDB code: 7zbp was solved by E.Santillana, A.Romero, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 73.44 / 1.45
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 100.349, 107.44, 186.231, 90, 90, 90
R / Rfree (%) 15.8 / 18.4

Other elements in 7zbp:

The structure of Unspecific Peroxygenase From Marasmius Rotula also contains other interesting chemical elements:

Iron (Fe) 4 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Unspecific Peroxygenase From Marasmius Rotula (pdb code 7zbp). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Unspecific Peroxygenase From Marasmius Rotula, PDB code: 7zbp:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in 7zbp

Go back to Magnesium Binding Sites List in 7zbp
Magnesium binding site 1 out of 4 in the Unspecific Peroxygenase From Marasmius Rotula


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Unspecific Peroxygenase From Marasmius Rotula within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg304

b:6.2
occ:1.00
OE2 A:GLU85 2.1 10.3 1.0
O A:HOH529 2.1 9.5 1.0
O1D A:HEM303 2.2 8.1 1.0
O A:HOH501 2.2 10.6 1.0
O A:HIS86 2.2 10.1 1.0
OG A:SER89 2.2 10.1 1.0
CD A:GLU85 3.1 10.0 1.0
CGD A:HEM303 3.1 8.6 1.0
C A:HIS86 3.3 9.1 1.0
CB A:SER89 3.4 9.4 1.0
O2D A:HEM303 3.5 8.8 1.0
N A:HIS86 3.5 8.9 1.0
CG A:GLU85 3.6 10.3 1.0
CA A:HIS86 4.0 8.5 1.0
O A:HOH475 4.1 11.4 1.0
O A:HOH487 4.2 9.5 1.0
OE1 A:GLU85 4.2 10.8 1.0
ND1 A:HIS86 4.3 8.1 1.0
N A:ASP87 4.3 9.4 1.0
O A:HOH429 4.4 9.9 1.0
CA A:SER89 4.5 8.4 1.0
CBD A:HEM303 4.5 8.3 1.0
N A:SER89 4.5 8.9 1.0
C A:GLU85 4.5 8.4 1.0
CE1 A:HIS86 4.5 8.6 1.0
O A:ASN100 4.5 9.3 1.0
CA A:ASP87 4.6 9.3 1.0
CB A:ARG92 4.6 9.1 1.0
CG A:HIS86 4.6 8.1 1.0
O A:GLU93 4.7 12.1 1.0
CA A:GLU85 4.7 8.6 1.0
CB A:ASN100 4.8 10.8 1.0
CB A:GLU85 4.8 9.0 1.0
C A:ASP87 4.8 9.6 1.0
CB A:HIS86 5.0 8.2 1.0
CAD A:HEM303 5.0 8.2 1.0

Magnesium binding site 2 out of 4 in 7zbp

Go back to Magnesium Binding Sites List in 7zbp
Magnesium binding site 2 out of 4 in the Unspecific Peroxygenase From Marasmius Rotula


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Unspecific Peroxygenase From Marasmius Rotula within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg302

b:5.9
occ:1.00
OE2 B:GLU85 2.1 10.7 1.0
O1D B:HEM301 2.1 8.2 1.0
O B:HOH487 2.2 11.0 1.0
O B:HIS86 2.2 9.5 1.0
O B:HOH518 2.2 9.6 1.0
OG B:SER89 2.2 9.9 1.0
CGD B:HEM301 3.1 8.8 1.0
CD B:GLU85 3.1 10.7 1.0
C B:HIS86 3.3 9.9 1.0
O2D B:HEM301 3.4 10.1 1.0
CB B:SER89 3.5 9.6 1.0
N B:HIS86 3.6 9.0 1.0
CG B:GLU85 3.6 10.3 1.0
CA B:HIS86 4.0 9.3 1.0
O B:HOH526 4.1 12.8 1.0
O B:HOH505 4.2 9.3 1.0
OE1 B:GLU85 4.2 11.6 1.0
ND1 B:HIS86 4.3 10.4 1.0
N B:ASP87 4.4 10.4 1.0
O B:HOH426 4.4 11.6 1.0
CBD B:HEM301 4.4 8.3 1.0
CA B:SER89 4.5 9.7 1.0
C B:GLU85 4.5 8.7 1.0
CE1 B:HIS86 4.5 10.0 1.0
N B:SER89 4.5 10.2 1.0
O B:ASN100 4.6 11.0 1.0
CB B:ARG92 4.6 10.4 1.0
CG B:HIS86 4.7 8.9 1.0
O B:GLU93 4.7 13.5 1.0
CA B:ASP87 4.7 11.3 1.0
CA B:GLU85 4.7 9.4 1.0
CB B:ASN100 4.7 11.1 1.0
CB B:GLU85 4.8 9.8 1.0
C B:ASP87 4.9 11.6 1.0
CAD B:HEM301 5.0 7.7 1.0

Magnesium binding site 3 out of 4 in 7zbp

Go back to Magnesium Binding Sites List in 7zbp
Magnesium binding site 3 out of 4 in the Unspecific Peroxygenase From Marasmius Rotula


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Unspecific Peroxygenase From Marasmius Rotula within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg302

b:8.5
occ:1.00
OE2 C:GLU85 2.1 12.6 1.0
O1D C:HEM301 2.1 10.3 1.0
O C:HOH530 2.1 12.0 1.0
O C:HIS86 2.2 10.4 1.0
O C:HOH446 2.2 12.4 1.0
OG C:SER89 2.2 10.6 1.0
CD C:GLU85 3.1 11.9 1.0
CGD C:HEM301 3.1 11.9 1.0
C C:HIS86 3.3 12.1 1.0
CB C:SER89 3.4 9.6 1.0
O2D C:HEM301 3.4 11.5 1.0
N C:HIS86 3.6 11.4 1.0
CG C:GLU85 3.6 11.7 1.0
CA C:HIS86 4.0 11.3 1.0
O C:HOH496 4.1 12.3 1.0
O C:HOH481 4.1 12.1 1.0
OE1 C:GLU85 4.2 15.0 1.0
ND1 C:HIS86 4.2 11.3 1.0
N C:ASP87 4.4 12.2 1.0
O C:HOH453 4.4 11.8 1.0
CBD C:HEM301 4.4 10.2 1.0
CA C:SER89 4.4 10.3 1.0
N C:SER89 4.5 10.3 1.0
C C:GLU85 4.5 12.4 1.0
CE1 C:HIS86 4.5 10.6 1.0
O C:ASN100 4.6 11.7 1.0
CB C:ARG92 4.6 11.3 1.0
O C:GLU93 4.6 12.9 1.0
CG C:HIS86 4.6 10.6 1.0
CA C:ASP87 4.6 10.9 1.0
CB C:ASN100 4.7 12.5 1.0
CA C:GLU85 4.7 11.6 1.0
CB C:GLU85 4.8 10.7 1.0
C C:ASP87 4.9 10.2 1.0
CB C:HIS86 5.0 11.2 1.0

Magnesium binding site 4 out of 4 in 7zbp

Go back to Magnesium Binding Sites List in 7zbp
Magnesium binding site 4 out of 4 in the Unspecific Peroxygenase From Marasmius Rotula


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Unspecific Peroxygenase From Marasmius Rotula within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg302

b:12.9
occ:1.00
OE2 D:GLU85 2.1 17.0 1.0
O1D D:HEM301 2.1 15.3 1.0
O D:HOH520 2.1 18.2 1.0
O D:HIS86 2.1 16.2 1.0
OG D:SER89 2.2 15.6 1.0
O D:HOH504 2.2 15.5 1.0
CGD D:HEM301 3.1 14.8 1.0
CD D:GLU85 3.1 18.3 1.0
C D:HIS86 3.3 14.7 1.0
O2D D:HEM301 3.4 16.9 1.0
CB D:SER89 3.4 17.1 1.0
N D:HIS86 3.5 15.3 1.0
CG D:GLU85 3.6 16.6 1.0
O D:HOH499 4.0 18.6 1.0
CA D:HIS86 4.0 14.6 1.0
OE1 D:GLU85 4.1 19.5 1.0
O D:HOH465 4.2 16.4 1.0
ND1 D:HIS86 4.3 15.2 1.0
N D:ASP87 4.4 15.4 1.0
O D:HOH437 4.4 16.7 1.0
CA D:SER89 4.5 15.3 1.0
CBD D:HEM301 4.5 14.3 1.0
C D:GLU85 4.5 16.6 1.0
N D:SER89 4.5 15.5 1.0
O D:ASN100 4.5 20.3 1.0
CE1 D:HIS86 4.5 13.7 1.0
CB D:ARG92 4.6 19.0 1.0
CG D:HIS86 4.7 13.7 1.0
O D:GLU93 4.7 20.7 1.0
CA D:GLU85 4.7 15.2 1.0
CA D:ASP87 4.7 16.5 1.0
CB D:ASN100 4.8 22.8 1.0
CB D:GLU85 4.8 16.3 1.0
C D:ASP87 4.9 18.1 1.0
CB D:HIS86 5.0 14.6 1.0

Reference:

D.Linde, E.Santillana, E.Fernandez-Fueyo, A.Gonzalez-Benjumea, J.Carro, A.Gutierrez, A.T.Martinez, A.Romero. Structural Characterization of Two Short Unspecific Peroxygenases: Two Different Dimeric Arrangements. Antioxidants V. 11 2022.
ISSN: ESSN 2076-3921
PubMed: 35624755
DOI: 10.3390/ANTIOX11050891
Page generated: Thu Oct 3 16:22:31 2024

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