Atomistry » Manganese » PDB 3kky-3m0l » 3kv2
Atomistry »
  Manganese »
    PDB 3kky-3m0l »
      3kv2 »

Manganese in PDB 3kv2: High Resolution Structure of Human Arginase I in Complex with the Strong Inhibitor N(Omega)-Hydroxy-Nor-L-Arginine (Nor-Noha)

Enzymatic activity of High Resolution Structure of Human Arginase I in Complex with the Strong Inhibitor N(Omega)-Hydroxy-Nor-L-Arginine (Nor-Noha)

All present enzymatic activity of High Resolution Structure of Human Arginase I in Complex with the Strong Inhibitor N(Omega)-Hydroxy-Nor-L-Arginine (Nor-Noha):
3.5.3.1;

Protein crystallography data

The structure of High Resolution Structure of Human Arginase I in Complex with the Strong Inhibitor N(Omega)-Hydroxy-Nor-L-Arginine (Nor-Noha), PDB code: 3kv2 was solved by L.Di Costanzo, D.W.Christianson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.00 / 1.55
Space group P 3
Cell size a, b, c (Å), α, β, γ (°) 90.497, 90.497, 69.604, 90.00, 90.00, 120.00
R / Rfree (%) 14.4 / 17.8

Manganese Binding Sites:

The binding sites of Manganese atom in the High Resolution Structure of Human Arginase I in Complex with the Strong Inhibitor N(Omega)-Hydroxy-Nor-L-Arginine (Nor-Noha) (pdb code 3kv2). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 4 binding sites of Manganese where determined in the High Resolution Structure of Human Arginase I in Complex with the Strong Inhibitor N(Omega)-Hydroxy-Nor-L-Arginine (Nor-Noha), PDB code: 3kv2:
Jump to Manganese binding site number: 1; 2; 3; 4;

Manganese binding site 1 out of 4 in 3kv2

Go back to Manganese Binding Sites List in 3kv2
Manganese binding site 1 out of 4 in the High Resolution Structure of Human Arginase I in Complex with the Strong Inhibitor N(Omega)-Hydroxy-Nor-L-Arginine (Nor-Noha)


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of High Resolution Structure of Human Arginase I in Complex with the Strong Inhibitor N(Omega)-Hydroxy-Nor-L-Arginine (Nor-Noha) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn514

b:11.1
occ:1.00
 OD1 A:ASP124 2.1 10.7 1.0
OH1 A:NNH901 2.3 13.8 1.0
OD2 A:ASP234 2.3 12.0 1.0
ND1 A:HIS126 2.3 10.8 1.0
OD2 A:ASP232 2.3 10.5 1.0
OD1 A:ASP234 2.3 10.0 1.0
CG A:ASP234 2.6 11.3 1.0
NH1 A:NNH901 3.0 12.2 1.0
CG A:ASP124 3.1 9.8 1.0
CE1 A:HIS126 3.1 10.6 1.0
CG A:ASP232 3.2 11.6 1.0
MN A:MN515 3.3 11.4 1.0
OD2 A:ASP124 3.3 11.9 1.0
CG A:HIS126 3.4 10.5 1.0
NH2 A:NNH901 3.5 10.2 1.0
CE A:NNH901 3.6 11.8 1.0
OD1 A:ASP232 3.7 12.7 1.0
CB A:HIS126 3.9 9.4 1.0
N A:HIS126 4.0 9.0 1.0
N A:ALA125 4.1 7.7 1.0
CB A:ASP232 4.1 11.1 1.0
CB A:ASP234 4.2 12.0 1.0
NE2 A:HIS126 4.3 11.7 1.0
CB A:ASP124 4.4 10.3 1.0
CD2 A:HIS126 4.5 9.5 1.0
CA A:HIS126 4.5 9.1 1.0
OG1 A:THR246 4.6 14.3 1.0
CB A:ALA125 4.7 8.2 1.0
O A:HOH480 4.7 45.9 1.0
O A:HOH347 4.7 11.7 1.0
ND A:NNH901 4.8 11.6 1.0
C A:ALA125 4.8 6.3 1.0
CA A:ALA125 4.8 7.8 1.0
CA A:ASP124 4.8 9.7 1.0
OD2 A:ASP128 4.8 11.2 1.0
C A:ASP124 4.9 7.8 1.0
OD1 A:ASP128 4.9 9.4 1.0
C A:ASP234 5.0 8.6 1.0
CA A:ASP234 5.0 10.2 1.0

Manganese binding site 2 out of 4 in 3kv2

Go back to Manganese Binding Sites List in 3kv2
Manganese binding site 2 out of 4 in the High Resolution Structure of Human Arginase I in Complex with the Strong Inhibitor N(Omega)-Hydroxy-Nor-L-Arginine (Nor-Noha)


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of High Resolution Structure of Human Arginase I in Complex with the Strong Inhibitor N(Omega)-Hydroxy-Nor-L-Arginine (Nor-Noha) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn515

b:11.4
occ:1.00
 OH1 A:NNH901 2.0 13.8 1.0
OD2 A:ASP124 2.1 11.9 1.0
OD2 A:ASP128 2.2 11.2 1.0
OD2 A:ASP232 2.3 10.5 1.0
ND1 A:HIS101 2.3 12.6 1.0
O A:HOH480 3.0 45.9 1.0
CG A:ASP124 3.1 9.8 1.0
NH1 A:NNH901 3.1 12.2 1.0
CG A:ASP128 3.2 8.9 1.0
MN A:MN514 3.3 11.1 1.0
CE1 A:HIS101 3.3 12.1 1.0
CG A:HIS101 3.3 13.0 1.0
CG A:ASP232 3.3 11.6 1.0
OD1 A:ASP124 3.5 10.7 1.0
CB A:HIS101 3.6 11.7 1.0
OD1 A:ASP128 3.6 9.4 1.0
CB A:ASP232 3.7 11.1 1.0
CE A:NNH901 4.3 11.8 1.0
NE1 A:TRP122 4.4 10.8 1.0
CB A:ASP124 4.4 10.3 1.0
OD1 A:ASP232 4.4 12.7 1.0
NE2 A:HIS101 4.4 11.9 1.0
O A:HIS141 4.4 11.3 1.0
CD2 A:HIS101 4.5 13.7 1.0
NH2 A:NNH901 4.5 10.2 1.0
CB A:ASP128 4.5 11.7 1.0
CZ2 A:TRP122 4.6 10.6 1.0
CG A:GLU277 4.8 12.6 1.0
OE2 A:GLU277 4.8 14.2 1.0
CE2 A:TRP122 4.8 11.0 1.0
CB A:HIS126 4.9 9.4 1.0
ND1 A:HIS126 4.9 10.8 1.0
O A:HIS126 5.0 9.5 1.0

Manganese binding site 3 out of 4 in 3kv2

Go back to Manganese Binding Sites List in 3kv2
Manganese binding site 3 out of 4 in the High Resolution Structure of Human Arginase I in Complex with the Strong Inhibitor N(Omega)-Hydroxy-Nor-L-Arginine (Nor-Noha)


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 3 of High Resolution Structure of Human Arginase I in Complex with the Strong Inhibitor N(Omega)-Hydroxy-Nor-L-Arginine (Nor-Noha) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mn514

b:13.8
occ:1.00
 OH1 B:NNH902 2.1 21.8 1.0
OD1 B:ASP234 2.2 13.7 1.0
OD1 B:ASP124 2.2 12.6 1.0
OD2 B:ASP232 2.3 15.4 1.0
OD2 B:ASP234 2.3 12.3 1.0
ND1 B:HIS126 2.4 17.1 1.0
CG B:ASP234 2.6 15.0 1.0
NH1 B:NNH902 2.9 21.9 1.0
CG B:ASP124 3.1 11.6 1.0
CG B:ASP232 3.1 13.5 1.0
CE1 B:HIS126 3.2 18.0 1.0
MN B:MN515 3.3 15.3 1.0
OD2 B:ASP124 3.4 12.7 1.0
CG B:HIS126 3.5 17.8 1.0
NH2 B:NNH902 3.6 21.3 1.0
CE B:NNH902 3.6 20.7 1.0
OD1 B:ASP232 3.7 12.4 1.0
CB B:HIS126 3.9 14.5 1.0
N B:HIS126 3.9 13.1 1.0
CB B:ASP234 4.1 14.4 1.0
CB B:ASP232 4.1 12.5 1.0
N B:ALA125 4.1 12.4 1.0
OG1 B:THR246 4.3 23.6 1.0
NE2 B:HIS126 4.3 16.9 1.0
CB B:ASP124 4.5 13.0 1.0
CD2 B:HIS126 4.5 17.7 1.0
CA B:HIS126 4.5 13.3 1.0
CB B:ALA125 4.5 10.3 1.0
O B:HOH475 4.6 40.3 1.0
O B:HOH340 4.7 12.8 1.0
CA B:ALA125 4.7 10.5 1.0
ND B:NNH902 4.8 18.1 1.0
C B:ALA125 4.8 10.6 1.0
OD2 B:ASP128 4.8 12.9 1.0
CA B:ASP124 4.9 12.0 1.0
OD1 B:ASP128 4.9 14.1 1.0
C B:ASP234 4.9 12.2 1.0
CA B:ASP234 4.9 11.9 1.0
C B:ASP124 5.0 12.3 1.0

Manganese binding site 4 out of 4 in 3kv2

Go back to Manganese Binding Sites List in 3kv2
Manganese binding site 4 out of 4 in the High Resolution Structure of Human Arginase I in Complex with the Strong Inhibitor N(Omega)-Hydroxy-Nor-L-Arginine (Nor-Noha)


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 4 of High Resolution Structure of Human Arginase I in Complex with the Strong Inhibitor N(Omega)-Hydroxy-Nor-L-Arginine (Nor-Noha) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mn515

b:15.3
occ:1.00
 OH1 B:NNH902 2.0 21.8 1.0
OD2 B:ASP128 2.1 12.9 1.0
OD2 B:ASP124 2.2 12.7 1.0
ND1 B:HIS101 2.4 15.1 1.0
OD2 B:ASP232 2.4 15.4 1.0
O B:HOH475 3.0 40.3 1.0
NH1 B:NNH902 3.1 21.9 1.0
CG B:ASP124 3.2 11.6 1.0
CG B:ASP128 3.2 13.8 1.0
MN B:MN514 3.3 13.8 1.0
CG B:HIS101 3.3 15.7 1.0
CE1 B:HIS101 3.4 12.6 1.0
CG B:ASP232 3.4 13.5 1.0
OD1 B:ASP124 3.5 12.6 1.0
CB B:HIS101 3.5 16.1 1.0
OD1 B:ASP128 3.6 14.1 1.0
CB B:ASP232 3.7 12.5 1.0
CE B:NNH902 4.2 20.7 1.0
NE1 B:TRP122 4.4 15.2 1.0
O B:HIS141 4.4 16.1 1.0
NE2 B:HIS101 4.5 13.4 1.0
CD2 B:HIS101 4.5 16.1 1.0
NH2 B:NNH902 4.5 21.3 1.0
CB B:ASP124 4.5 13.0 1.0
CB B:ASP128 4.5 13.2 1.0
OD1 B:ASP232 4.5 12.4 1.0
CZ2 B:TRP122 4.6 15.1 1.0
CG B:GLU277 4.7 17.5 1.0
O B:HIS126 4.8 14.2 1.0
CE2 B:TRP122 4.8 16.7 1.0
CB B:HIS126 4.9 14.5 1.0
ND1 B:HIS126 4.9 17.1 1.0
OD1 B:ASP234 5.0 13.7 1.0
OE2 B:GLU277 5.0 20.6 1.0

Reference:

L.Di Costanzo, M.Ilies, K.J.Thorn, D.W.Christianson. Inhibition of Human Arginase I By Substrate and Product Analogues. Arch.Biochem.Biophys. V. 496 101 2010.
ISSN: ISSN 0003-9861
PubMed: 20153713
DOI: 10.1016/J.ABB.2010.02.004
Page generated: Sat Oct 5 16:46:04 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy