Atomistry » Calcium » PDB 4bb9-4bu4 » 4blz
Atomistry »
  Calcium »
    PDB 4bb9-4bu4 »
      4blz »

Calcium in PDB 4blz: Crystal Structure of Fungal Versatile Peroxidase I From Pleurotus Ostreatus - Crystal Form VI

Enzymatic activity of Crystal Structure of Fungal Versatile Peroxidase I From Pleurotus Ostreatus - Crystal Form VI

All present enzymatic activity of Crystal Structure of Fungal Versatile Peroxidase I From Pleurotus Ostreatus - Crystal Form VI:
1.11.1.16;

Protein crystallography data

The structure of Crystal Structure of Fungal Versatile Peroxidase I From Pleurotus Ostreatus - Crystal Form VI, PDB code: 4blz was solved by F.J.Medrano, A.Romero, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 49.085 / 2.00
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 94.540, 38.620, 98.190, 90.00, 91.15, 90.00
R / Rfree (%) 22.31 / 27.18

Other elements in 4blz:

The structure of Crystal Structure of Fungal Versatile Peroxidase I From Pleurotus Ostreatus - Crystal Form VI also contains other interesting chemical elements:

Iron (Fe) 2 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the Crystal Structure of Fungal Versatile Peroxidase I From Pleurotus Ostreatus - Crystal Form VI (pdb code 4blz). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the Crystal Structure of Fungal Versatile Peroxidase I From Pleurotus Ostreatus - Crystal Form VI, PDB code: 4blz:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in 4blz

Go back to Calcium Binding Sites List in 4blz
Calcium binding site 1 out of 4 in the Crystal Structure of Fungal Versatile Peroxidase I From Pleurotus Ostreatus - Crystal Form VI


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Crystal Structure of Fungal Versatile Peroxidase I From Pleurotus Ostreatus - Crystal Form VI within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca400

b:19.5
occ:1.00
 O A:SER171 2.7 13.6 1.0
O A:VAL193 2.7 19.6 1.0
OD1 A:ASP195 2.8 19.5 1.0
O A:THR190 2.8 19.8 1.0
OD2 A:ASP188 2.9 16.1 1.0
OG1 A:THR190 2.9 24.4 1.0
OG A:SER171 3.0 15.7 1.0
OD1 A:ASP188 3.0 16.9 1.0
CG A:ASP188 3.3 16.9 1.0
C A:THR190 3.4 19.1 1.0
CG A:ASP195 3.5 19.5 1.0
C A:SER171 3.6 13.4 1.0
OD2 A:ASP195 3.7 20.8 1.0
CB A:THR190 3.8 25.2 1.0
CA A:SER171 3.8 14.3 1.0
C A:VAL193 3.9 19.5 1.0
CB A:SER171 3.9 15.4 1.0
CA A:THR190 3.9 19.8 1.0
N A:ASP195 4.1 17.9 1.0
N A:THR190 4.2 20.2 1.0
N A:PRO191 4.2 17.2 1.0
CA A:PRO191 4.4 17.2 1.0
N A:VAL193 4.5 17.7 1.0
CB A:VAL193 4.5 18.6 1.0
CA A:VAL193 4.5 18.6 1.0
CB A:GLN197 4.6 14.8 1.0
CB A:ASP195 4.6 18.9 1.0
O A:HOH2204 4.7 14.6 1.0
O A:ASP195 4.7 17.5 1.0
CA A:ASP195 4.7 18.3 1.0
N A:ILE172 4.8 13.7 1.0
CB A:ASP188 4.8 16.7 1.0
C A:ASP195 4.8 17.1 1.0
N A:PHE194 4.9 19.3 1.0
C A:PRO191 4.9 17.2 1.0
CA A:PHE194 4.9 18.5 1.0
CG2 A:ILE172 4.9 15.3 1.0
C A:PHE194 5.0 18.7 1.0

Calcium binding site 2 out of 4 in 4blz

Go back to Calcium Binding Sites List in 4blz
Calcium binding site 2 out of 4 in the Crystal Structure of Fungal Versatile Peroxidase I From Pleurotus Ostreatus - Crystal Form VI


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Crystal Structure of Fungal Versatile Peroxidase I From Pleurotus Ostreatus - Crystal Form VI within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca401

b:28.1
occ:1.00
 O A:GLY61 2.8 19.6 1.0
O A:ASP49 2.9 17.1 1.0
OD1 A:ASP63 2.9 29.4 1.0
O A:HOH2072 3.0 24.9 1.0
O A:HOH2064 3.0 24.9 1.0
OD1 A:ASP49 3.0 24.8 1.0
OG A:SER65 3.0 23.9 1.0
C A:ASP49 3.5 18.4 1.0
CG A:ASP49 3.7 24.0 1.0
C A:GLY61 3.8 20.6 1.0
CB A:SER65 3.8 25.0 1.0
CA A:ASP49 3.8 20.1 1.0
CG A:ASP63 3.9 30.1 1.0
N A:SER65 4.0 24.3 1.0
O A:HOH2087 4.2 19.3 1.0
N A:ASP63 4.2 22.6 1.0
OD2 A:ASP49 4.3 24.4 1.0
OD2 A:ASP63 4.3 32.8 1.0
CB A:ASP49 4.4 21.8 1.0
CA A:SER65 4.4 24.9 1.0
O A:GLY52 4.4 19.2 1.0
OE2 A:GLU73 4.4 29.9 1.0
N A:ILE66 4.5 24.4 1.0
N A:GLY61 4.5 21.8 1.0
N A:ALA50 4.6 19.5 1.0
CA A:GLY61 4.6 20.9 1.0
N A:GLY64 4.6 24.1 1.0
OE1 A:GLU73 4.7 28.2 1.0
CA A:GLY52 4.7 19.2 1.0
N A:ALA62 4.7 20.7 1.0
CB A:SER134 4.8 25.9 1.0
CA A:ALA62 4.8 21.5 1.0
C A:SER65 4.8 25.3 1.0
N A:GLY52 4.9 19.4 1.0
O A:HIS48 4.9 15.3 1.0
C A:GLY60 5.0 22.4 1.0
C A:GLY52 5.0 19.6 1.0

Calcium binding site 3 out of 4 in 4blz

Go back to Calcium Binding Sites List in 4blz
Calcium binding site 3 out of 4 in the Crystal Structure of Fungal Versatile Peroxidase I From Pleurotus Ostreatus - Crystal Form VI


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Crystal Structure of Fungal Versatile Peroxidase I From Pleurotus Ostreatus - Crystal Form VI within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca400

b:19.7
occ:1.00
 O B:SER171 2.8 18.0 1.0
O B:VAL193 2.8 23.4 1.0
OD1 B:ASP195 2.8 19.1 1.0
O B:THR190 2.8 19.1 1.0
OD2 B:ASP188 2.9 18.9 1.0
OG B:SER171 2.9 18.6 1.0
OG1 B:THR190 3.0 22.9 1.0
OD1 B:ASP188 3.0 19.2 1.0
CG B:ASP188 3.3 18.5 1.0
C B:THR190 3.4 19.2 1.0
CG B:ASP195 3.5 18.5 1.0
C B:SER171 3.6 17.3 1.0
CB B:THR190 3.7 22.7 1.0
OD2 B:ASP195 3.7 18.6 1.0
CA B:SER171 3.8 17.1 1.0
CB B:SER171 3.8 18.1 1.0
C B:VAL193 3.8 22.5 1.0
CA B:THR190 3.9 21.3 1.0
N B:PRO191 4.2 19.0 1.0
N B:THR190 4.2 20.9 1.0
N B:ASP195 4.2 18.3 1.0
CB B:VAL193 4.4 22.2 1.0
N B:VAL193 4.4 20.3 1.0
CA B:PRO191 4.4 18.5 1.0
CA B:VAL193 4.5 21.8 1.0
O B:HOH2210 4.6 14.2 1.0
CB B:GLN197 4.7 20.0 1.0
O B:ASP195 4.7 20.0 1.0
CB B:ASP195 4.7 19.2 1.0
N B:ILE172 4.8 17.1 1.0
CB B:ASP188 4.8 16.5 1.0
N B:PHE194 4.8 21.4 1.0
CA B:ASP195 4.9 19.0 1.0
C B:PRO191 4.9 17.8 1.0
CA B:PHE194 4.9 19.3 1.0
C B:ASP195 4.9 19.6 1.0

Calcium binding site 4 out of 4 in 4blz

Go back to Calcium Binding Sites List in 4blz
Calcium binding site 4 out of 4 in the Crystal Structure of Fungal Versatile Peroxidase I From Pleurotus Ostreatus - Crystal Form VI


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Crystal Structure of Fungal Versatile Peroxidase I From Pleurotus Ostreatus - Crystal Form VI within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca401

b:26.6
occ:1.00
 O B:GLY61 2.8 25.3 1.0
OD1 B:ASP63 2.8 23.4 1.0
O B:ASP49 2.9 18.8 1.0
OG B:SER65 3.0 21.2 1.0
O B:HOH2061 3.0 22.0 1.0
OD1 B:ASP49 3.0 27.5 1.0
O B:HOH2066 3.1 26.9 1.0
CG B:ASP63 3.5 24.1 1.0
CG B:ASP49 3.6 25.2 1.0
C B:ASP49 3.6 19.3 1.0
OD2 B:ASP63 3.8 25.4 1.0
CB B:SER65 3.9 22.0 1.0
CA B:ASP49 3.9 21.8 1.0
C B:GLY61 3.9 25.0 1.0
N B:SER65 3.9 20.7 1.0
OD2 B:ASP49 4.0 23.7 1.0
N B:ASP63 4.0 20.9 1.0
O B:HOH2080 4.2 20.2 1.0
CB B:ASP49 4.3 23.6 1.0
CA B:SER65 4.4 21.5 1.0
N B:ILE66 4.5 20.6 1.0
N B:GLY64 4.5 19.6 1.0
N B:GLY61 4.5 24.5 1.0
O B:GLY52 4.5 22.9 1.0
OE2 B:GLU73 4.6 21.0 1.0
N B:ALA50 4.6 18.7 1.0
CB B:ASP63 4.7 22.8 1.0
CA B:GLY61 4.7 25.6 1.0
CA B:ASP63 4.8 21.2 1.0
OE1 B:GLU73 4.8 20.9 1.0
CA B:ALA62 4.8 21.9 1.0
N B:ALA62 4.8 23.7 1.0
C B:SER65 4.9 20.0 1.0
C B:ASP63 4.9 20.2 1.0
C B:GLY60 4.9 24.4 1.0
C B:ALA62 5.0 21.2 1.0
CA B:GLY52 5.0 22.6 1.0
C B:GLY64 5.0 21.3 1.0

Reference:

E.Fernandez-Fueyo, F.J.Ruiz-Duenas, M.J.Martinez, A.Romero, K.E.Hammel, F.J.Medrano, A.T.Martinez. Ligninolytic Peroxidase Genes in the Oyster Mushroom Genome: Heterologous Expression, Molecular Structure, Catalytic and Stability Properties, and Lignin-Degrading Ability. Biotechnol.Biofuels V. 7 2 2014.
ISSN: ISSN 1754-6834
PubMed: 24387130
DOI: 10.1186/1754-6834-7-2
Page generated: Sat Jul 13 22:43:27 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy