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Manganese in PDB 1p8n: Structural and Functional Importance of First-Shell Metal Ligands in the Binuclear Manganese Cluster of Arginase I.

Enzymatic activity of Structural and Functional Importance of First-Shell Metal Ligands in the Binuclear Manganese Cluster of Arginase I.

All present enzymatic activity of Structural and Functional Importance of First-Shell Metal Ligands in the Binuclear Manganese Cluster of Arginase I.:
3.5.3.1;

Protein crystallography data

The structure of Structural and Functional Importance of First-Shell Metal Ligands in the Binuclear Manganese Cluster of Arginase I., PDB code: 1p8n was solved by E.Cama, F.A.Emig, D.E.Ash, D.W.Christianson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 29.57 / 2.90
Space group P 32
Cell size a, b, c (Å), α, β, γ (°) 90.337, 90.337, 104.985, 90.00, 90.00, 120.00
R / Rfree (%) 28.6 / 30.5

Manganese Binding Sites:

The binding sites of Manganese atom in the Structural and Functional Importance of First-Shell Metal Ligands in the Binuclear Manganese Cluster of Arginase I. (pdb code 1p8n). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 3 binding sites of Manganese where determined in the Structural and Functional Importance of First-Shell Metal Ligands in the Binuclear Manganese Cluster of Arginase I., PDB code: 1p8n:
Jump to Manganese binding site number: 1; 2; 3;

Manganese binding site 1 out of 3 in 1p8n

Go back to Manganese Binding Sites List in 1p8n
Manganese binding site 1 out of 3 in the Structural and Functional Importance of First-Shell Metal Ligands in the Binuclear Manganese Cluster of Arginase I.


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Structural and Functional Importance of First-Shell Metal Ligands in the Binuclear Manganese Cluster of Arginase I. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn500

b:53.6
occ:1.00
 OD1 A:ASP124 2.0 76.9 1.0
ND1 A:HIS101 2.1 69.2 1.0
OD1 A:ASP128 2.1 67.9 1.0
O A:HOH823 2.4 54.2 1.0
CG A:ASP124 3.0 75.3 1.0
CG A:ASP128 3.1 68.5 1.0
CE1 A:HIS101 3.1 70.2 1.0
CG A:HIS101 3.1 72.1 1.0
OD2 A:ASP128 3.4 68.7 1.0
CB A:HIS101 3.4 73.7 1.0
OD2 A:ASP124 3.6 78.7 1.0
CB A:ASP124 4.0 71.1 1.0
NE2 A:HIS101 4.2 69.8 1.0
CD2 A:HIS101 4.2 70.7 1.0
O A:HIS141 4.4 77.9 1.0
CB A:ASP128 4.4 70.3 1.0
NE1 A:TRP122 4.4 76.2 1.0
ND1 A:HIS126 4.5 70.8 1.0
CZ2 A:TRP122 4.5 76.6 1.0
CB A:ALA232 4.5 82.0 1.0
OD2 A:ASP234 4.6 92.4 1.0
OD1 A:ASP234 4.7 93.5 1.0
CE2 A:TRP122 4.8 76.4 1.0
CG A:GLU277 4.9 86.3 1.0
CA A:HIS101 4.9 73.8 1.0
CB A:HIS126 5.0 67.4 1.0

Manganese binding site 2 out of 3 in 1p8n

Go back to Manganese Binding Sites List in 1p8n
Manganese binding site 2 out of 3 in the Structural and Functional Importance of First-Shell Metal Ligands in the Binuclear Manganese Cluster of Arginase I.


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Structural and Functional Importance of First-Shell Metal Ligands in the Binuclear Manganese Cluster of Arginase I. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mn501

b:91.1
occ:1.00
 OD1 B:ASP124 2.0 86.4 1.0
OD1 B:ASP128 2.1 54.5 1.0
ND1 B:HIS101 2.2 86.6 1.0
O B:HOH851 2.4 65.4 1.0
CG B:ASP128 2.9 58.7 1.0
CG B:ASP124 3.1 85.3 1.0
CG B:HIS101 3.1 87.5 1.0
CE1 B:HIS101 3.2 86.3 1.0
OD2 B:ASP128 3.2 55.4 1.0
CB B:HIS101 3.3 89.2 1.0
OD2 B:ASP124 3.7 86.3 1.0
CB B:ASP124 4.2 82.2 1.0
O B:HIS141 4.2 81.5 1.0
CB B:ASP128 4.2 66.0 1.0
CD2 B:HIS101 4.3 86.3 1.0
NE2 B:HIS101 4.3 85.1 1.0
O B:HOH813 4.4 58.4 1.0
ND1 B:HIS126 4.5 80.2 1.0
CB B:ALA232 4.5 83.9 0.0
NE1 B:TRP122 4.6 86.3 1.0
OD2 B:ASP234 4.6 94.8 1.0
CZ2 B:TRP122 4.7 85.7 1.0
OD1 B:ASP234 4.8 94.3 1.0
OE2 B:GLU277 4.8 78.4 1.0
CG B:GLU277 4.8 78.4 1.0
CA B:HIS101 4.9 89.3 1.0
CE2 B:TRP122 4.9 86.0 1.0
CB B:HIS126 5.0 78.0 1.0

Manganese binding site 3 out of 3 in 1p8n

Go back to Manganese Binding Sites List in 1p8n
Manganese binding site 3 out of 3 in the Structural and Functional Importance of First-Shell Metal Ligands in the Binuclear Manganese Cluster of Arginase I.


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 3 of Structural and Functional Importance of First-Shell Metal Ligands in the Binuclear Manganese Cluster of Arginase I. within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mn502

b:86.3
occ:1.00
 OD1 C:ASP124 2.0 75.8 1.0
OD1 C:ASP128 2.1 81.0 1.0
ND1 C:HIS101 2.2 76.4 1.0
O C:HOH824 2.4 80.0 1.0
CG C:ASP124 3.0 75.8 1.0
CG C:ASP128 3.0 81.3 1.0
CG C:HIS101 3.1 76.6 1.0
CE1 C:HIS101 3.1 76.0 1.0
OD2 C:ASP128 3.3 82.2 1.0
CB C:HIS101 3.4 78.7 1.0
OD2 C:ASP124 3.6 73.9 1.0
CB C:ASP124 4.1 76.7 1.0
NE2 C:HIS101 4.3 75.2 1.0
O C:HIS141 4.3 84.2 1.0
CD2 C:HIS101 4.3 75.8 1.0
CB C:ASP128 4.3 81.3 1.0
NE1 C:TRP122 4.5 73.7 1.0
ND1 C:HIS126 4.5 89.2 1.0
CZ2 C:TRP122 4.6 73.6 1.0
CB C:ALA232 4.6 80.8 0.0
OD2 C:ASP234 4.6 90.6 1.0
OD1 C:ASP234 4.7 91.3 1.0
CE2 C:TRP122 4.8 73.3 1.0
CG C:GLU277 4.9 82.4 1.0
CA C:HIS101 4.9 80.5 1.0
CB C:HIS126 4.9 86.4 1.0

Reference:

E.Cama, F.A.Emig, D.E.Ash, D.W.Christianson. Structural and Functional Importance of First-Shell Metal Ligands in the Binuclear Manganese Cluster of Arginase I Biochemistry V. 42 7748 2003.
ISSN: ISSN 0006-2960
PubMed: 12820884
DOI: 10.1021/BI030074Y
Page generated: Sat Oct 5 12:02:24 2024

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