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Molybdenum in PDB 8ed4: Structure of the Complex Between the Arsenite Oxidase and Its Native Electron Acceptor Cytochrome C552 From Pseudorhizobium Sp. Str. Nt-26

Enzymatic activity of Structure of the Complex Between the Arsenite Oxidase and Its Native Electron Acceptor Cytochrome C552 From Pseudorhizobium Sp. Str. Nt-26

All present enzymatic activity of Structure of the Complex Between the Arsenite Oxidase and Its Native Electron Acceptor Cytochrome C552 From Pseudorhizobium Sp. Str. Nt-26:
1.20.98.1;

Protein crystallography data

The structure of Structure of the Complex Between the Arsenite Oxidase and Its Native Electron Acceptor Cytochrome C552 From Pseudorhizobium Sp. Str. Nt-26, PDB code: 8ed4 was solved by M.J.Maher, N.Poddar, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 49.23 / 2.25
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 129.4, 126.56, 148.02, 90, 107.81, 90
R / Rfree (%) 18.1 / 23

Other elements in 8ed4:

The structure of Structure of the Complex Between the Arsenite Oxidase and Its Native Electron Acceptor Cytochrome C552 From Pseudorhizobium Sp. Str. Nt-26 also contains other interesting chemical elements:

Iron (Fe) 24 atoms

Molybdenum Binding Sites:

The binding sites of Molybdenum atom in the Structure of the Complex Between the Arsenite Oxidase and Its Native Electron Acceptor Cytochrome C552 From Pseudorhizobium Sp. Str. Nt-26 (pdb code 8ed4). This binding sites where shown within 5.0 Angstroms radius around Molybdenum atom.
In total 4 binding sites of Molybdenum where determined in the Structure of the Complex Between the Arsenite Oxidase and Its Native Electron Acceptor Cytochrome C552 From Pseudorhizobium Sp. Str. Nt-26, PDB code: 8ed4:
Jump to Molybdenum binding site number: 1; 2; 3; 4;

Molybdenum binding site 1 out of 4 in 8ed4

Go back to Molybdenum Binding Sites List in 8ed4
Molybdenum binding site 1 out of 4 in the Structure of the Complex Between the Arsenite Oxidase and Its Native Electron Acceptor Cytochrome C552 From Pseudorhizobium Sp. Str. Nt-26


Mono view


Stereo pair view

A full contact list of Molybdenum with other atoms in the Mo binding site number 1 of Structure of the Complex Between the Arsenite Oxidase and Its Native Electron Acceptor Cytochrome C552 From Pseudorhizobium Sp. Str. Nt-26 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mo2003

b:2.5
occ:1.00
 O A:O2005 1.8 30.0 1.0
S12 A:MGD2002 2.3 0.5 1.0
S13 A:MGD2002 2.3 0.5 1.0
S13 A:MGD2001 2.4 0.5 1.0
S12 A:MGD2001 2.4 0.5 1.0
C12 A:MGD2002 3.3 0.5 1.0
C13 A:MGD2002 3.3 0.5 1.0
O A:HOH2103 3.5 6.2 1.0
C13 A:MGD2001 3.5 0.5 1.0
C12 A:MGD2001 3.5 0.5 1.0
NH2 A:ARG720 3.6 0.5 1.0
NZ A:LYS413 3.8 0.7 1.0
ND2 A:ASN200 4.1 2.8 1.0
CA A:GLY450 4.3 4.2 1.0
CD2 A:HIS451 4.4 5.5 1.0
CZ A:ARG720 4.6 0.5 1.0
N A:HIS451 4.7 5.0 1.0
C11 A:MGD2002 4.8 0.5 1.0
C14 A:MGD2002 4.8 0.5 1.0
NE2 A:GLN726 4.8 0.5 1.0
NE2 A:HIS451 4.9 5.6 1.0
OE1 A:GLN726 4.9 0.5 1.0
CE A:LYS413 4.9 0.7 1.0
C A:GLY450 4.9 4.5 1.0
CB A:ASN200 4.9 2.8 1.0
C14 A:MGD2001 4.9 0.5 1.0
CD A:LYS413 4.9 0.7 1.0
C11 A:MGD2001 5.0 0.5 1.0

Molybdenum binding site 2 out of 4 in 8ed4

Go back to Molybdenum Binding Sites List in 8ed4
Molybdenum binding site 2 out of 4 in the Structure of the Complex Between the Arsenite Oxidase and Its Native Electron Acceptor Cytochrome C552 From Pseudorhizobium Sp. Str. Nt-26


Mono view


Stereo pair view

A full contact list of Molybdenum with other atoms in the Mo binding site number 2 of Structure of the Complex Between the Arsenite Oxidase and Its Native Electron Acceptor Cytochrome C552 From Pseudorhizobium Sp. Str. Nt-26 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mo2003

b:2.9
occ:1.00
 O C:O2005 1.7 30.0 1.0
S13 C:MGD2002 2.3 3.6 1.0
S13 C:MGD2001 2.3 0.6 1.0
S12 C:MGD2002 2.3 3.8 1.0
S12 C:MGD2001 2.5 0.6 1.0
C13 C:MGD2002 3.3 3.9 1.0
C13 C:MGD2001 3.3 0.6 1.0
C12 C:MGD2002 3.4 3.9 1.0
C12 C:MGD2001 3.4 0.6 1.0
O C:HOH2101 3.4 7.8 1.0
NH2 C:ARG720 3.4 5.0 1.0
NZ C:LYS413 3.8 5.5 1.0
ND2 C:ASN200 4.0 0.5 1.0
CA C:GLY450 4.3 5.7 1.0
CD2 C:HIS451 4.4 4.2 1.0
CZ C:ARG720 4.5 5.0 1.0
CE C:LYS413 4.7 5.4 1.0
CB C:ASN200 4.8 0.5 1.0
C14 C:MGD2001 4.8 0.6 1.0
C14 C:MGD2002 4.8 4.0 1.0
C11 C:MGD2002 4.8 4.0 1.0
NE2 C:HIS451 4.8 4.2 1.0
C11 C:MGD2001 4.8 0.6 1.0
CD C:LYS413 4.8 5.4 1.0
NE2 C:GLN726 4.9 3.4 1.0
N C:HIS451 4.9 4.9 1.0
CG C:ASN200 4.9 0.5 1.0
OE1 C:GLN726 4.9 3.4 1.0

Molybdenum binding site 3 out of 4 in 8ed4

Go back to Molybdenum Binding Sites List in 8ed4
Molybdenum binding site 3 out of 4 in the Structure of the Complex Between the Arsenite Oxidase and Its Native Electron Acceptor Cytochrome C552 From Pseudorhizobium Sp. Str. Nt-26


Mono view


Stereo pair view

A full contact list of Molybdenum with other atoms in the Mo binding site number 3 of Structure of the Complex Between the Arsenite Oxidase and Its Native Electron Acceptor Cytochrome C552 From Pseudorhizobium Sp. Str. Nt-26 within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mo2003

b:0.5
occ:1.00
 O E:O2005 1.8 30.0 1.0
S12 E:MGD2002 2.3 0.5 1.0
S13 E:MGD2002 2.3 0.5 1.0
S13 E:MGD2001 2.4 0.5 1.0
S12 E:MGD2001 2.4 0.5 1.0
O E:HOH2102 3.0 5.8 1.0
C13 E:MGD2002 3.3 0.5 1.0
C12 E:MGD2002 3.3 0.5 1.0
C12 E:MGD2001 3.4 0.5 1.0
C13 E:MGD2001 3.4 0.5 1.0
NH2 E:ARG720 3.6 0.5 1.0
NZ E:LYS413 3.8 1.9 1.0
ND2 E:ASN200 4.0 0.5 1.0
CA E:GLY450 4.3 0.7 1.0
ND1 E:HIS451 4.3 0.6 1.0
CE1 E:HIS451 4.6 0.6 1.0
CZ E:ARG720 4.7 0.5 1.0
C11 E:MGD2002 4.7 0.5 1.0
CB E:ASN200 4.8 0.5 1.0
C14 E:MGD2002 4.8 0.5 1.0
N E:HIS451 4.8 0.6 1.0
CE E:LYS413 4.8 1.9 1.0
C11 E:MGD2001 4.8 0.5 1.0
C14 E:MGD2001 4.8 0.5 1.0
CD E:LYS413 4.9 1.9 1.0
OE1 E:GLN726 4.9 0.5 1.0
CG E:ASN200 4.9 0.5 1.0
NE2 E:GLN726 4.9 0.5 1.0
C E:GLY450 4.9 0.7 1.0
NE2 E:HIS199 5.0 0.5 1.0

Molybdenum binding site 4 out of 4 in 8ed4

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Molybdenum binding site 4 out of 4 in the Structure of the Complex Between the Arsenite Oxidase and Its Native Electron Acceptor Cytochrome C552 From Pseudorhizobium Sp. Str. Nt-26


Mono view


Stereo pair view

A full contact list of Molybdenum with other atoms in the Mo binding site number 4 of Structure of the Complex Between the Arsenite Oxidase and Its Native Electron Acceptor Cytochrome C552 From Pseudorhizobium Sp. Str. Nt-26 within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Mo2003

b:1.1
occ:1.00
 O G:O2005 1.8 30.0 1.0
S12 G:MGD2002 2.4 0.5 1.0
S12 G:MGD2001 2.4 0.5 1.0
S13 G:MGD2002 2.4 0.5 1.0
S13 G:MGD2001 2.5 0.5 1.0
C12 G:MGD2001 3.4 0.5 1.0
C13 G:MGD2001 3.4 0.5 1.0
C13 G:MGD2002 3.4 0.5 1.0
C12 G:MGD2002 3.4 0.5 1.0
O G:HOH2103 3.6 0.9 1.0
NH2 G:ARG720 3.7 0.5 1.0
ND2 G:ASN200 4.0 0.5 1.0
NZ G:LYS413 4.1 0.5 1.0
CD2 G:HIS451 4.3 0.5 1.0
CA G:GLY450 4.3 0.5 1.0
CE G:LYS413 4.4 0.5 1.0
CZ G:ARG720 4.6 0.5 1.0
CB G:ASN200 4.7 0.5 1.0
NE2 G:HIS451 4.8 0.5 1.0
N G:HIS451 4.8 0.5 1.0
OE1 G:GLN726 4.8 0.5 1.0
C14 G:MGD2002 4.8 0.5 1.0
C14 G:MGD2001 4.8 0.5 1.0
C11 G:MGD2002 4.8 0.5 1.0
C11 G:MGD2001 4.9 0.5 1.0
NE2 G:HIS199 4.9 0.5 1.0
CG G:ASN200 4.9 0.5 1.0
NE2 G:GLN726 4.9 0.5 1.0
C G:GLY450 5.0 0.5 1.0

Reference:

N.Poddar, J.M.Santini, M.J.Maher. The Structure of the Complex Between the Arsenite Oxidase From Pseudorhizobium Banfieldiae Sp. Strain Nt-26 and Its Native Electron Acceptor Cytochrome C 552. Acta Crystallogr D Struct V. 79 345 2023BIOL.
ISSN: ISSN 2059-7983
PubMed: 36995233
DOI: 10.1107/S2059798323002103
Page generated: Sun Oct 6 17:42:01 2024

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