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Sodium in PDB 1mg3: Mutation of Alpha PHE55 of Methylamine Dehydrogenase Alters the Reorganization Energy and Electronic Coupling For Its Electron Transfer Reaction with Amicyanin

Enzymatic activity of Mutation of Alpha PHE55 of Methylamine Dehydrogenase Alters the Reorganization Energy and Electronic Coupling For Its Electron Transfer Reaction with Amicyanin

All present enzymatic activity of Mutation of Alpha PHE55 of Methylamine Dehydrogenase Alters the Reorganization Energy and Electronic Coupling For Its Electron Transfer Reaction with Amicyanin:
1.4.99.3;

Protein crystallography data

The structure of Mutation of Alpha PHE55 of Methylamine Dehydrogenase Alters the Reorganization Energy and Electronic Coupling For Its Electron Transfer Reaction with Amicyanin, PDB code: 1mg3 was solved by D.Sun, Z.W.Chen, F.S.Mathews, V.L.Davidson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.00 / 2.40
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 79.520, 188.372, 127.366, 90.00, 98.84, 90.00
R / Rfree (%) 19.3 / 24.6

Other elements in 1mg3:

The structure of Mutation of Alpha PHE55 of Methylamine Dehydrogenase Alters the Reorganization Energy and Electronic Coupling For Its Electron Transfer Reaction with Amicyanin also contains other interesting chemical elements:

Iron (Fe) 4 atoms
Copper (Cu) 4 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Mutation of Alpha PHE55 of Methylamine Dehydrogenase Alters the Reorganization Energy and Electronic Coupling For Its Electron Transfer Reaction with Amicyanin (pdb code 1mg3). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 4 binding sites of Sodium where determined in the Mutation of Alpha PHE55 of Methylamine Dehydrogenase Alters the Reorganization Energy and Electronic Coupling For Its Electron Transfer Reaction with Amicyanin, PDB code: 1mg3:
Jump to Sodium binding site number: 1; 2; 3; 4;

Sodium binding site 1 out of 4 in 1mg3

Go back to Sodium Binding Sites List in 1mg3
Sodium binding site 1 out of 4 in the Mutation of Alpha PHE55 of Methylamine Dehydrogenase Alters the Reorganization Energy and Electronic Coupling For Its Electron Transfer Reaction with Amicyanin


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Mutation of Alpha PHE55 of Methylamine Dehydrogenase Alters the Reorganization Energy and Electronic Coupling For Its Electron Transfer Reaction with Amicyanin within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Na603

b:40.8
occ:1.00
 O D:GLY72 2.6 36.7 1.0
OD2 D:ASP75 2.6 42.5 1.0
O D:TYR77 2.7 26.8 1.0
O D:HOH1177 2.7 20.1 1.0
C D:GLY72 3.3 34.6 1.0
CG D:ASP75 3.3 40.2 1.0
OE2 C:GLU31 3.4 48.8 1.0
OD1 D:ASP75 3.6 41.1 1.0
CD C:GLU31 3.8 45.9 1.0
OE1 C:GLU31 3.8 42.3 1.0
C D:TYR77 3.8 28.0 1.0
N D:LEU73 4.0 33.5 1.0
CA D:LEU73 4.1 31.8 1.0
O D:ASP75 4.2 31.1 1.0
CA D:GLY72 4.2 36.5 1.0
N D:ASP75 4.3 32.6 1.0
CD2 D:TYR77 4.3 31.1 1.0
CB D:TYR77 4.4 27.5 1.0
C D:LEU73 4.5 32.6 1.0
N D:ASN74 4.5 33.9 1.0
CA D:TYR77 4.5 29.2 1.0
CB D:ASP75 4.5 37.1 1.0
N D:TYR77 4.6 30.5 1.0
N D:GLY72 4.6 33.8 1.0
C D:ASP75 4.6 35.0 1.0
CA D:ASP75 4.7 34.7 1.0
NZ C:LYS29 4.8 68.1 1.0
N D:TRP78 4.8 27.3 1.0
CG D:TYR77 4.9 28.6 1.0
CG C:GLU31 4.9 43.3 1.0

Sodium binding site 2 out of 4 in 1mg3

Go back to Sodium Binding Sites List in 1mg3
Sodium binding site 2 out of 4 in the Mutation of Alpha PHE55 of Methylamine Dehydrogenase Alters the Reorganization Energy and Electronic Coupling For Its Electron Transfer Reaction with Amicyanin


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Mutation of Alpha PHE55 of Methylamine Dehydrogenase Alters the Reorganization Energy and Electronic Coupling For Its Electron Transfer Reaction with Amicyanin within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Na604

b:23.9
occ:1.00
 OD2 H:ASP75 2.3 36.3 1.0
O H:GLY72 2.7 17.2 1.0
O H:TYR77 2.8 30.4 1.0
OE2 G:GLU31 3.0 30.9 1.0
O H:HOH1248 3.1 27.4 1.0
CG H:ASP75 3.3 36.3 1.0
C H:GLY72 3.4 20.3 1.0
CD G:GLU31 3.5 31.8 1.0
OD1 H:ASP75 3.8 33.3 1.0
OE1 G:GLU31 3.8 33.3 1.0
C H:TYR77 4.0 32.5 1.0
N H:LEU73 4.1 22.5 1.0
CA H:GLY72 4.1 19.5 1.0
N H:ASP75 4.2 32.5 1.0
CA H:LEU73 4.3 24.6 1.0
N H:GLY72 4.4 18.8 1.0
O H:ASP75 4.4 31.7 1.0
CG G:GLU31 4.4 30.7 1.0
N H:ASN74 4.6 29.6 1.0
CB H:ASP75 4.6 30.8 1.0
C H:LEU73 4.6 28.4 1.0
CA H:ASP75 4.7 30.2 1.0
N H:TYR77 4.7 37.5 1.0
C H:ASP75 4.7 31.4 1.0
CA H:TYR77 4.7 34.5 1.0
CB H:TYR77 4.9 38.3 1.0
CB G:GLU31 5.0 29.3 1.0

Sodium binding site 3 out of 4 in 1mg3

Go back to Sodium Binding Sites List in 1mg3
Sodium binding site 3 out of 4 in the Mutation of Alpha PHE55 of Methylamine Dehydrogenase Alters the Reorganization Energy and Electronic Coupling For Its Electron Transfer Reaction with Amicyanin


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of Mutation of Alpha PHE55 of Methylamine Dehydrogenase Alters the Reorganization Energy and Electronic Coupling For Its Electron Transfer Reaction with Amicyanin within 5.0Å range:
probe atom residue distance (Å) B Occ
L:Na602

b:21.9
occ:1.00
 OD2 L:ASP75 2.4 48.0 1.0
O L:GLY72 2.4 28.4 1.0
O L:TYR77 2.9 24.4 1.0
O L:HOH1155 3.0 30.8 1.0
OE2 K:GLU31 3.1 30.4 1.0
C L:GLY72 3.3 25.2 1.0
CG L:ASP75 3.4 40.7 1.0
CD K:GLU31 3.6 29.8 1.0
OD1 L:ASP75 3.7 42.3 1.0
OE1 K:GLU31 4.0 24.8 1.0
C L:TYR77 4.0 23.6 1.0
CA L:GLY72 4.1 25.6 1.0
N L:LEU73 4.2 23.1 1.0
CA L:LEU73 4.3 21.4 1.0
N L:GLY72 4.3 26.6 1.0
CG K:GLU31 4.4 23.4 1.0
CD2 L:TYR77 4.6 21.3 1.0
N L:ASP75 4.6 29.7 1.0
O L:ASP75 4.6 33.0 1.0
C L:LEU73 4.7 26.5 1.0
CB K:GLU31 4.7 23.5 1.0
CB L:ASP75 4.7 36.1 1.0
CB L:TYR77 4.7 23.7 1.0
N L:ASN74 4.7 28.4 1.0
CA L:TYR77 4.8 24.7 1.0
O2A L:HEM200 4.8 31.5 1.0
N L:TYR77 4.9 30.0 1.0
N L:TRP78 4.9 22.1 1.0

Sodium binding site 4 out of 4 in 1mg3

Go back to Sodium Binding Sites List in 1mg3
Sodium binding site 4 out of 4 in the Mutation of Alpha PHE55 of Methylamine Dehydrogenase Alters the Reorganization Energy and Electronic Coupling For Its Electron Transfer Reaction with Amicyanin


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 4 of Mutation of Alpha PHE55 of Methylamine Dehydrogenase Alters the Reorganization Energy and Electronic Coupling For Its Electron Transfer Reaction with Amicyanin within 5.0Å range:
probe atom residue distance (Å) B Occ
P:Na601

b:10.1
occ:1.00
 O P:GLY72 2.6 25.7 1.0
O P:TYR77 2.6 33.0 1.0
O P:HOH1289 2.7 29.7 1.0
O P:HOH1132 2.8 12.2 1.0
OD2 P:ASP75 2.9 45.2 1.0
OE2 O:GLU31 3.1 28.9 1.0
C P:GLY72 3.4 21.6 1.0
CD O:GLU31 3.6 30.5 1.0
CG P:ASP75 3.7 37.7 1.0
C P:TYR77 3.7 28.2 1.0
OE1 O:GLU31 3.9 28.0 1.0
OD1 P:ASP75 3.9 33.9 1.0
N P:LEU73 4.1 20.6 1.0
CA P:GLY72 4.2 21.3 1.0
CA P:LEU73 4.3 17.8 1.0
CD2 P:TYR77 4.3 25.1 1.0
O P:ASP75 4.4 30.8 1.0
CB P:TYR77 4.4 23.9 1.0
CA P:TYR77 4.4 25.6 1.0
N P:ASP75 4.5 22.6 1.0
N P:TYR77 4.5 28.5 1.0
N P:GLY72 4.5 25.4 1.0
CG O:GLU31 4.6 27.3 1.0
O2A P:HEM200 4.6 30.9 1.0
N P:TRP78 4.7 26.3 1.0
C P:LEU73 4.7 19.8 1.0
N P:ASN74 4.8 18.1 1.0
C P:ASP75 4.8 30.7 1.0
CE3 P:TRP78 4.8 14.0 1.0
CG P:TYR77 4.8 22.6 1.0
CA P:TRP78 4.8 26.6 1.0
CB P:ASP75 4.8 29.9 1.0
CA P:ASP75 4.9 29.4 1.0

Reference:

D.Sun, Z.W.Chen, F.S.Mathews, V.L.Davidson. Mutation of Alpha PHE55 of Methylamine Dehydrogenase Alters the Reorganization Energy and Electronic Coupling For Its Electron Transfer Reaction with Amicyanin Biochemistry V. 41 13926 2002.
ISSN: ISSN 0006-2960
PubMed: 12437349
DOI: 10.1021/BI026654X
Page generated: Sun Oct 6 20:31:32 2024

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