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Manganese in PDB 4iu5: Crystal Structure of Leishmania Mexicana Arginase in Complex with Catalytic Product L-Ornithine

Enzymatic activity of Crystal Structure of Leishmania Mexicana Arginase in Complex with Catalytic Product L-Ornithine

All present enzymatic activity of Crystal Structure of Leishmania Mexicana Arginase in Complex with Catalytic Product L-Ornithine:
3.5.3.1;

Protein crystallography data

The structure of Crystal Structure of Leishmania Mexicana Arginase in Complex with Catalytic Product L-Ornithine, PDB code: 4iu5 was solved by E.L.D'antonio, B.Ullman, S.C.Roberts, U.Gaur Dixit, M.E.Wilson, Y.Hai, D.W.Christianson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.00 / 1.95
Space group H 3
Cell size a, b, c (Å), α, β, γ (°) 89.617, 89.617, 114.359, 90.00, 90.00, 120.00
R / Rfree (%) 16.4 / 20.6

Manganese Binding Sites:

The binding sites of Manganese atom in the Crystal Structure of Leishmania Mexicana Arginase in Complex with Catalytic Product L-Ornithine (pdb code 4iu5). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 2 binding sites of Manganese where determined in the Crystal Structure of Leishmania Mexicana Arginase in Complex with Catalytic Product L-Ornithine, PDB code: 4iu5:
Jump to Manganese binding site number: 1; 2;

Manganese binding site 1 out of 2 in 4iu5

Go back to Manganese Binding Sites List in 4iu5
Manganese binding site 1 out of 2 in the Crystal Structure of Leishmania Mexicana Arginase in Complex with Catalytic Product L-Ornithine


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Crystal Structure of Leishmania Mexicana Arginase in Complex with Catalytic Product L-Ornithine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn401

b:31.9
occ:1.00
OD2 A:ASP137 2.0 29.9 1.0
OD2 A:ASP141 2.2 30.4 1.0
OD2 A:ASP243 2.3 29.0 1.0
ND1 A:HIS114 2.4 36.1 1.0
O A:HOH566 2.5 52.7 1.0
MN A:MN402 2.9 40.3 1.0
CG A:ASP141 3.0 31.9 1.0
CG A:ASP137 3.1 28.7 1.0
OD1 A:ASP141 3.1 32.4 1.0
CG A:HIS114 3.2 35.3 1.0
CB A:HIS114 3.3 35.6 1.0
CG A:ASP243 3.4 30.8 1.0
CE1 A:HIS114 3.5 34.9 1.0
OD1 A:ASP137 3.5 28.1 1.0
NE A:ORN403 3.9 44.5 1.0
CB A:ASP243 3.9 31.0 1.0
NE1 A:TRP135 4.2 31.0 1.0
CB A:ASP137 4.4 28.6 1.0
CD2 A:HIS114 4.4 35.8 1.0
OE1 A:GLU288 4.4 66.3 1.0
CB A:ASP141 4.4 29.9 1.0
OD1 A:ASP243 4.5 26.8 1.0
NE2 A:HIS114 4.5 32.9 1.0
O A:HIS154 4.5 41.0 1.0
CZ2 A:TRP135 4.7 29.7 1.0
OD1 A:ASP245 4.7 43.5 1.0
CA A:HIS114 4.8 36.9 1.0
CE2 A:TRP135 4.8 30.3 1.0
CD A:ORN403 4.8 45.4 1.0
ND1 A:HIS139 4.9 35.9 1.0
O A:HIS139 4.9 30.8 1.0
CB A:HIS139 4.9 32.1 1.0

Manganese binding site 2 out of 2 in 4iu5

Go back to Manganese Binding Sites List in 4iu5
Manganese binding site 2 out of 2 in the Crystal Structure of Leishmania Mexicana Arginase in Complex with Catalytic Product L-Ornithine


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Crystal Structure of Leishmania Mexicana Arginase in Complex with Catalytic Product L-Ornithine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn402

b:40.3
occ:1.00
OD1 A:ASP137 2.2 28.1 1.0
OD1 A:ASP245 2.2 43.5 1.0
ND1 A:HIS139 2.4 35.9 1.0
OD2 A:ASP243 2.6 29.0 1.0
MN A:MN401 2.9 31.9 1.0
CG A:ASP137 3.0 28.7 1.0
CG A:ASP245 3.0 42.9 1.0
OD2 A:ASP137 3.1 29.9 1.0
OD2 A:ASP245 3.1 41.2 1.0
CE1 A:HIS139 3.3 36.6 1.0
CG A:ASP243 3.3 30.8 1.0
CG A:HIS139 3.4 34.0 1.0
O A:HOH566 3.6 52.7 1.0
CB A:HIS139 3.8 32.1 1.0
OD1 A:ASP243 3.8 26.8 1.0
N A:HIS139 4.0 28.9 1.0
NE A:ORN403 4.1 44.5 1.0
CD A:ORN403 4.2 45.4 1.0
CB A:ASP243 4.2 31.0 1.0
N A:ALA138 4.3 27.6 1.0
OD1 A:ASP141 4.4 32.4 1.0
OG1 A:THR257 4.4 0.9 1.0
NE2 A:HIS139 4.4 35.2 1.0
CB A:ASP137 4.4 28.6 1.0
CA A:HIS139 4.5 30.3 1.0
CB A:ASP245 4.5 41.4 1.0
CD2 A:HIS139 4.5 34.0 1.0
OD2 A:ASP141 4.6 30.4 1.0
CB A:ALA138 4.9 27.1 1.0
C A:ALA138 4.9 26.8 1.0
CG A:ASP141 4.9 31.9 1.0
O A:HIS139 4.9 30.8 1.0
CA A:ALA138 4.9 26.7 1.0
CA A:ASP137 5.0 28.6 1.0
ND1 A:HIS114 5.0 36.1 1.0

Reference:

E.L.D'antonio, B.Ullman, S.C.Roberts, U.G.Dixit, M.E.Wilson, Y.Hai, D.W.Christianson. Crystal Structure of Arginase From Leishmania Mexicana and Implications For the Inhibition of Polyamine Biosynthesis in Parasitic Infections. Arch.Biochem.Biophys. V. 535 163 2013.
ISSN: ISSN 0003-9861
PubMed: 23583962
DOI: 10.1016/J.ABB.2013.03.015
Page generated: Tue Dec 15 04:22:49 2020

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