Molybdenum in PDB 5nqd: Arsenite Oxidase Aioab From Rhizobium Sp. Str. Nt-26 Mutant AIOBF108A
Enzymatic activity of Arsenite Oxidase Aioab From Rhizobium Sp. Str. Nt-26 Mutant AIOBF108A
All present enzymatic activity of Arsenite Oxidase Aioab From Rhizobium Sp. Str. Nt-26 Mutant AIOBF108A:
1.20.98.1;
Protein crystallography data
The structure of Arsenite Oxidase Aioab From Rhizobium Sp. Str. Nt-26 Mutant AIOBF108A, PDB code: 5nqd
was solved by
T.Santos-Silva,
M.Romao,
M.Vieira,
A.T.Marques,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
49.55 /
2.20
|
Space group
|
P 2 21 21
|
Cell size a, b, c (Å), α, β, γ (°)
|
141.408,
148.665,
232.009,
90.00,
90.00,
90.00
|
R / Rfree (%)
|
17.2 /
21.7
|
Other elements in 5nqd:
The structure of Arsenite Oxidase Aioab From Rhizobium Sp. Str. Nt-26 Mutant AIOBF108A also contains other interesting chemical elements:
Molybdenum Binding Sites:
The binding sites of Molybdenum atom in the Arsenite Oxidase Aioab From Rhizobium Sp. Str. Nt-26 Mutant AIOBF108A
(pdb code 5nqd). This binding sites where shown within
5.0 Angstroms radius around Molybdenum atom.
In total 4 binding sites of Molybdenum where determined in the
Arsenite Oxidase Aioab From Rhizobium Sp. Str. Nt-26 Mutant AIOBF108A, PDB code: 5nqd:
Jump to Molybdenum binding site number:
1;
2;
3;
4;
Molybdenum binding site 1 out
of 4 in 5nqd
Go back to
Molybdenum Binding Sites List in 5nqd
Molybdenum binding site 1 out
of 4 in the Arsenite Oxidase Aioab From Rhizobium Sp. Str. Nt-26 Mutant AIOBF108A
Mono view
Stereo pair view
|
A full contact list of Molybdenum with other atoms in the Mo binding
site number 1 of Arsenite Oxidase Aioab From Rhizobium Sp. Str. Nt-26 Mutant AIOBF108A within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mo2004
b:18.1
occ:1.00
|
O
|
A:O2003
|
1.6
|
17.3
|
1.0
|
S12
|
A:MGD2002
|
2.3
|
19.3
|
1.0
|
S13
|
A:MGD2002
|
2.3
|
14.9
|
1.0
|
S13
|
A:MGD2001
|
2.4
|
15.4
|
1.0
|
S12
|
A:MGD2001
|
2.4
|
18.0
|
1.0
|
C13
|
A:MGD2002
|
3.3
|
16.6
|
1.0
|
C13
|
A:MGD2001
|
3.3
|
15.4
|
1.0
|
C12
|
A:MGD2002
|
3.3
|
16.5
|
1.0
|
C12
|
A:MGD2001
|
3.3
|
15.7
|
1.0
|
NZ
|
A:LYS413
|
3.7
|
19.5
|
1.0
|
NH2
|
A:ARG720
|
3.8
|
17.3
|
1.0
|
ND2
|
A:ASN200
|
4.0
|
15.5
|
1.0
|
O
|
A:HOH2361
|
4.1
|
18.1
|
1.0
|
ND1
|
A:HIS451
|
4.3
|
21.8
|
1.0
|
CA
|
A:GLY450
|
4.3
|
19.4
|
1.0
|
C14
|
A:MGD2002
|
4.7
|
16.6
|
1.0
|
CE
|
A:LYS413
|
4.7
|
18.7
|
1.0
|
C14
|
A:MGD2001
|
4.8
|
14.5
|
1.0
|
CZ
|
A:ARG720
|
4.8
|
17.9
|
1.0
|
N
|
A:HIS451
|
4.8
|
19.3
|
1.0
|
CE1
|
A:HIS451
|
4.8
|
21.8
|
1.0
|
CB
|
A:ASN200
|
4.8
|
14.0
|
1.0
|
C11
|
A:MGD2002
|
4.8
|
16.3
|
1.0
|
NE2
|
A:HIS199
|
4.8
|
16.7
|
1.0
|
C11
|
A:MGD2001
|
4.8
|
15.2
|
1.0
|
CG
|
A:ASN200
|
4.9
|
15.5
|
1.0
|
NE2
|
A:GLN726
|
5.0
|
19.2
|
1.0
|
C
|
A:GLY450
|
5.0
|
18.6
|
1.0
|
|
Molybdenum binding site 2 out
of 4 in 5nqd
Go back to
Molybdenum Binding Sites List in 5nqd
Molybdenum binding site 2 out
of 4 in the Arsenite Oxidase Aioab From Rhizobium Sp. Str. Nt-26 Mutant AIOBF108A
Mono view
Stereo pair view
|
A full contact list of Molybdenum with other atoms in the Mo binding
site number 2 of Arsenite Oxidase Aioab From Rhizobium Sp. Str. Nt-26 Mutant AIOBF108A within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Mo2004
b:23.1
occ:1.00
|
O
|
C:O2003
|
1.6
|
22.6
|
1.0
|
S13
|
C:MGD2002
|
2.3
|
24.1
|
1.0
|
S13
|
C:MGD2001
|
2.3
|
20.3
|
1.0
|
S12
|
C:MGD2002
|
2.4
|
21.2
|
1.0
|
S12
|
C:MGD2001
|
2.5
|
17.3
|
1.0
|
C13
|
C:MGD2002
|
3.2
|
21.1
|
1.0
|
C13
|
C:MGD2001
|
3.3
|
19.4
|
1.0
|
C12
|
C:MGD2002
|
3.3
|
20.2
|
1.0
|
C12
|
C:MGD2001
|
3.4
|
18.6
|
1.0
|
NZ
|
C:LYS413
|
3.6
|
24.6
|
1.0
|
NH2
|
C:ARG720
|
3.9
|
23.9
|
1.0
|
ND2
|
C:ASN200
|
3.9
|
20.3
|
1.0
|
ND1
|
C:HIS451
|
4.3
|
22.6
|
1.0
|
CA
|
C:GLY450
|
4.5
|
22.4
|
1.0
|
O
|
C:HOH2336
|
4.5
|
39.3
|
1.0
|
CE1
|
C:HIS451
|
4.6
|
22.9
|
1.0
|
C14
|
C:MGD2002
|
4.7
|
22.1
|
1.0
|
C14
|
C:MGD2001
|
4.7
|
18.0
|
1.0
|
C11
|
C:MGD2002
|
4.8
|
20.3
|
1.0
|
CE
|
C:LYS413
|
4.8
|
24.4
|
1.0
|
NE2
|
C:HIS199
|
4.8
|
20.2
|
1.0
|
N
|
C:HIS451
|
4.8
|
19.4
|
1.0
|
CZ
|
C:ARG720
|
4.8
|
23.5
|
1.0
|
CB
|
C:ASN200
|
4.8
|
19.4
|
1.0
|
NE2
|
C:GLN726
|
4.9
|
27.5
|
1.0
|
C11
|
C:MGD2001
|
4.9
|
19.3
|
1.0
|
CG
|
C:ASN200
|
4.9
|
20.1
|
1.0
|
OE1
|
C:GLN726
|
4.9
|
23.2
|
1.0
|
|
Molybdenum binding site 3 out
of 4 in 5nqd
Go back to
Molybdenum Binding Sites List in 5nqd
Molybdenum binding site 3 out
of 4 in the Arsenite Oxidase Aioab From Rhizobium Sp. Str. Nt-26 Mutant AIOBF108A
Mono view
Stereo pair view
|
A full contact list of Molybdenum with other atoms in the Mo binding
site number 3 of Arsenite Oxidase Aioab From Rhizobium Sp. Str. Nt-26 Mutant AIOBF108A within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Mo2004
b:23.4
occ:1.00
|
O
|
E:O2003
|
1.8
|
32.5
|
1.0
|
S13
|
E:MGD2001
|
2.3
|
20.3
|
1.0
|
S12
|
E:MGD2002
|
2.4
|
21.3
|
1.0
|
S13
|
E:MGD2002
|
2.4
|
22.9
|
1.0
|
S12
|
E:MGD2001
|
2.5
|
22.2
|
1.0
|
C13
|
E:MGD2001
|
3.3
|
20.2
|
1.0
|
C13
|
E:MGD2002
|
3.3
|
20.2
|
1.0
|
C12
|
E:MGD2002
|
3.4
|
19.2
|
1.0
|
C12
|
E:MGD2001
|
3.4
|
19.6
|
1.0
|
NH2
|
E:ARG720
|
3.7
|
24.6
|
1.0
|
ND2
|
E:ASN200
|
3.9
|
18.2
|
1.0
|
NZ
|
E:LYS413
|
3.9
|
24.6
|
1.0
|
ND1
|
E:HIS451
|
4.3
|
22.7
|
1.0
|
CA
|
E:GLY450
|
4.4
|
23.1
|
1.0
|
CE1
|
E:HIS451
|
4.7
|
23.1
|
1.0
|
CZ
|
E:ARG720
|
4.7
|
23.2
|
1.0
|
C14
|
E:MGD2001
|
4.8
|
17.8
|
1.0
|
NE2
|
E:HIS199
|
4.8
|
17.2
|
1.0
|
C14
|
E:MGD2002
|
4.8
|
21.0
|
1.0
|
C11
|
E:MGD2002
|
4.8
|
18.3
|
1.0
|
N
|
E:HIS451
|
4.8
|
22.5
|
1.0
|
CB
|
E:ASN200
|
4.8
|
17.4
|
1.0
|
CG
|
E:ASN200
|
4.8
|
17.5
|
1.0
|
C11
|
E:MGD2001
|
4.9
|
18.3
|
1.0
|
OE1
|
E:GLN726
|
4.9
|
23.1
|
1.0
|
CD
|
E:LYS413
|
5.0
|
25.2
|
1.0
|
C
|
E:GLY450
|
5.0
|
22.5
|
1.0
|
CE
|
E:LYS413
|
5.0
|
26.7
|
1.0
|
|
Molybdenum binding site 4 out
of 4 in 5nqd
Go back to
Molybdenum Binding Sites List in 5nqd
Molybdenum binding site 4 out
of 4 in the Arsenite Oxidase Aioab From Rhizobium Sp. Str. Nt-26 Mutant AIOBF108A
Mono view
Stereo pair view
|
A full contact list of Molybdenum with other atoms in the Mo binding
site number 4 of Arsenite Oxidase Aioab From Rhizobium Sp. Str. Nt-26 Mutant AIOBF108A within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
G:Mo2004
b:22.2
occ:1.00
|
O
|
G:O2003
|
1.4
|
23.3
|
1.0
|
S13
|
G:MGD2001
|
2.4
|
18.7
|
1.0
|
S12
|
G:MGD2002
|
2.4
|
18.5
|
1.0
|
S13
|
G:MGD2002
|
2.4
|
18.1
|
1.0
|
S12
|
G:MGD2001
|
2.4
|
20.4
|
1.0
|
C13
|
G:MGD2002
|
3.3
|
18.4
|
1.0
|
C13
|
G:MGD2001
|
3.3
|
19.0
|
1.0
|
C12
|
G:MGD2002
|
3.3
|
17.2
|
1.0
|
C12
|
G:MGD2001
|
3.3
|
19.9
|
1.0
|
NZ
|
G:LYS413
|
3.5
|
20.2
|
1.0
|
NH2
|
G:ARG720
|
3.8
|
20.1
|
1.0
|
ND2
|
G:ASN200
|
4.0
|
17.2
|
1.0
|
CA
|
G:GLY450
|
4.4
|
18.8
|
1.0
|
ND1
|
G:HIS451
|
4.5
|
22.7
|
1.0
|
C14
|
G:MGD2002
|
4.7
|
18.8
|
1.0
|
C11
|
G:MGD2002
|
4.7
|
16.1
|
1.0
|
C14
|
G:MGD2001
|
4.8
|
18.2
|
1.0
|
CZ
|
G:ARG720
|
4.8
|
20.7
|
1.0
|
C11
|
G:MGD2001
|
4.8
|
19.1
|
1.0
|
CE
|
G:LYS413
|
4.8
|
20.6
|
1.0
|
N
|
G:HIS451
|
4.8
|
19.7
|
1.0
|
OE1
|
G:GLN726
|
4.9
|
16.9
|
1.0
|
CB
|
G:ASN200
|
4.9
|
16.9
|
1.0
|
NE2
|
G:HIS199
|
4.9
|
17.4
|
1.0
|
CE1
|
G:HIS451
|
4.9
|
24.1
|
1.0
|
NE2
|
G:GLN726
|
5.0
|
16.6
|
1.0
|
C
|
G:GLY450
|
5.0
|
19.7
|
1.0
|
CG
|
G:ASN200
|
5.0
|
18.0
|
1.0
|
|
Reference:
T.Santos-Silva,
M.Romao,
M.Vieira,
A.T.Marques.
Arsenite Oxidase Aioab From Rhizobium Sp. Str. Nt-26 Mutant AIOBF108A To Be Published.
Page generated: Sun Oct 6 16:28:39 2024
|