Atomistry » Manganese » PDB 1o9i-1pj3 » 1p8r
Atomistry »
  Manganese »
    PDB 1o9i-1pj3 »
      1p8r »

Manganese in PDB 1p8r: 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: 1p8r 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) 500.00 / 2.50
Space group P 3
Cell size a, b, c (Å), α, β, γ (°) 91.000, 91.000, 69.300, 90.00, 90.00, 120.00
R / Rfree (%) 14.4 / 20.1

Other elements in 1p8r:

The structure of Structural and Functional Importance of First-Shell Metal Ligands in the Binuclear Manganese Cluster of Arginase I. also contains other interesting chemical elements:

Chlorine (Cl) 4 atoms

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 1p8r). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 4 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: 1p8r:
Jump to Manganese binding site number: 1; 2; 3; 4;

Manganese binding site 1 out of 4 in 1p8r

Go back to Manganese Binding Sites List in 1p8r
Manganese binding site 1 out of 4 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:18.2
occ:1.00
 ND1 A:HIS126 2.1 6.7 1.0
O1 A:S2C551 2.2 40.5 1.0
OD2 A:ASP234 2.3 22.4 1.0
OD2 A:ASP124 2.4 11.9 1.0
OD1 A:ASP234 2.4 21.6 1.0
OD2 A:ASP232 2.6 17.6 1.0
CG A:ASP234 2.7 19.6 1.0
CE1 A:HIS126 2.9 9.2 1.0
O3 A:S2C551 3.0 43.0 1.0
B A:S2C551 3.1 42.3 1.0
CG A:ASP124 3.2 10.3 1.0
OD1 A:ASP124 3.3 10.5 1.0
CG A:HIS126 3.3 7.9 1.0
CG A:ASP232 3.4 15.7 1.0
MN A:MN501 3.6 23.2 1.0
CE A:S2C551 3.7 43.6 1.0
CB A:HIS126 3.9 7.8 1.0
OD1 A:ASP232 3.9 14.5 1.0
N A:HIS126 4.0 9.1 1.0
NE2 A:HIS126 4.1 9.1 1.0
N A:ALA125 4.1 8.9 1.0
CB A:ASP234 4.2 16.8 1.0
O2 A:S2C551 4.3 40.8 1.0
CD2 A:HIS126 4.3 7.4 1.0
CB A:ASP232 4.4 14.6 1.0
CD A:S2C551 4.5 46.7 1.0
CA A:HIS126 4.5 8.3 1.0
CB A:ASP124 4.6 8.5 1.0
CB A:ALA125 4.7 8.1 1.0
OD2 A:ASP128 4.7 10.8 1.0
O A:THR246 4.8 16.9 1.0
C A:ALA125 4.8 7.9 1.0
CA A:ALA125 4.8 7.5 1.0
OD1 A:ASP128 4.9 8.6 1.0
CA A:ASP124 4.9 8.9 1.0

Manganese binding site 2 out of 4 in 1p8r

Go back to Manganese Binding Sites List in 1p8r
Manganese binding site 2 out of 4 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
A:Mn501

b:23.2
occ:1.00
 OD1 A:ASP128 2.1 8.6 1.0
O1 A:S2C551 2.1 40.5 1.0
OD1 A:ASP124 2.3 10.5 1.0
OE1 A:GLU101 2.3 18.3 1.0
OD2 A:ASP232 2.4 17.6 1.0
O2 A:S2C551 2.5 40.8 1.0
B A:S2C551 2.7 42.3 1.0
CG A:ASP128 3.1 7.5 1.0
O3 A:S2C551 3.2 43.0 1.0
CG A:ASP124 3.4 10.3 1.0
OD2 A:ASP128 3.4 10.8 1.0
CD A:GLU101 3.4 18.6 1.0
CG A:ASP232 3.5 15.7 1.0
MN A:MN500 3.6 18.2 1.0
CB A:GLU101 3.8 18.0 1.0
OD2 A:ASP124 3.9 11.9 1.0
CB A:ASP232 3.9 14.6 1.0
CG A:GLU101 4.0 16.6 1.0
O A:HIS141 4.1 19.6 1.0
CE A:S2C551 4.2 43.6 1.0
CZ2 A:TRP122 4.2 12.9 1.0
NE1 A:TRP122 4.2 12.3 1.0
CB A:ASP128 4.4 8.2 1.0
OE2 A:GLU101 4.4 17.7 1.0
OD1 A:ASP232 4.5 14.5 1.0
CE2 A:TRP122 4.6 12.4 1.0
CD A:S2C551 4.6 46.7 1.0
CB A:ASP124 4.6 8.5 1.0
CG A:GLU277 4.7 17.1 1.0
OD2 A:ASP234 5.0 22.4 1.0

Manganese binding site 3 out of 4 in 1p8r

Go back to Manganese Binding Sites List in 1p8r
Manganese binding site 3 out of 4 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
B:Mn502

b:15.6
occ:1.00
 O1 B:S2C552 2.2 29.1 1.0
ND1 B:HIS126 2.2 12.5 1.0
OD1 B:ASP234 2.3 8.9 1.0
OD2 B:ASP234 2.3 9.7 1.0
OD2 B:ASP124 2.3 18.2 1.0
OD2 B:ASP232 2.5 16.0 1.0
CG B:ASP234 2.6 7.1 1.0
CE1 B:HIS126 2.9 13.1 1.0
CG B:ASP124 3.1 16.6 1.0
B B:S2C552 3.2 29.4 1.0
O3 B:S2C552 3.2 30.6 1.0
OD1 B:ASP124 3.2 15.9 1.0
CG B:ASP232 3.3 15.1 1.0
CG B:HIS126 3.4 14.3 1.0
MN B:MN503 3.7 22.7 1.0
OD1 B:ASP232 3.8 16.9 1.0
CE B:S2C552 3.9 29.1 1.0
CB B:HIS126 4.0 13.8 1.0
N B:HIS126 4.0 13.8 1.0
N B:ALA125 4.0 12.3 1.0
CB B:ASP234 4.1 6.4 1.0
NE2 B:HIS126 4.2 14.8 1.0
CB B:ASP232 4.2 12.7 1.0
O2 B:S2C552 4.4 29.5 1.0
CD2 B:HIS126 4.4 14.6 1.0
CB B:ASP124 4.5 13.2 1.0
CB B:ALA125 4.6 10.0 1.0
CA B:HIS126 4.6 13.3 1.0
CD B:S2C552 4.6 29.7 1.0
CA B:ALA125 4.7 11.6 1.0
C B:ALA125 4.7 13.1 1.0
O B:THR246 4.8 18.4 1.0
CA B:ASP124 4.8 12.8 1.0
OD2 B:ASP128 4.8 11.2 1.0
C B:ASP234 4.9 8.8 1.0
C B:ASP124 4.9 12.9 1.0
CA B:ASP234 4.9 9.0 1.0
O B:ASP234 4.9 10.1 1.0
OD1 B:ASP128 5.0 8.3 1.0

Manganese binding site 4 out of 4 in 1p8r

Go back to Manganese Binding Sites List in 1p8r
Manganese binding site 4 out of 4 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 4 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:Mn503

b:22.7
occ:1.00
 OD1 B:ASP128 2.2 8.3 1.0
O1 B:S2C552 2.2 29.1 1.0
OE1 B:GLU101 2.2 18.9 1.0
OD1 B:ASP124 2.3 15.9 1.0
OD2 B:ASP232 2.4 16.0 1.0
O2 B:S2C552 2.5 29.5 1.0
B B:S2C552 2.8 29.4 1.0
CG B:ASP128 3.2 10.4 1.0
CD B:GLU101 3.4 19.6 1.0
CG B:ASP232 3.4 15.1 1.0
O3 B:S2C552 3.4 30.6 1.0
CG B:ASP124 3.4 16.6 1.0
OD2 B:ASP128 3.5 11.2 1.0
MN B:MN502 3.7 15.6 1.0
CB B:GLU101 3.8 18.9 1.0
CB B:ASP232 3.9 12.7 1.0
OD2 B:ASP124 3.9 18.2 1.0
CG B:GLU101 3.9 18.6 1.0
O B:HIS141 4.1 4.2 1.0
CZ2 B:TRP122 4.2 11.2 1.0
NE1 B:TRP122 4.2 11.7 1.0
CE B:S2C552 4.3 29.1 1.0
OE2 B:GLU101 4.4 19.3 1.0
OD1 B:ASP232 4.4 16.9 1.0
CB B:ASP128 4.5 13.7 1.0
CE2 B:TRP122 4.6 10.3 1.0
CG B:GLU277 4.6 20.7 1.0
CB B:ASP124 4.6 13.2 1.0
CD B:S2C552 4.7 29.7 1.0
OD2 B:ASP234 5.0 9.7 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 12:03:39 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