Atomistry » Magnesium » PDB 3jay-3jwr » 3jwr
Atomistry »
  Magnesium »
    PDB 3jay-3jwr »
      3jwr »

Magnesium in PDB 3jwr: Crystal Structure of Chimeric PDE5/PDE6 Catalytic Domain Complexed with 3-Isobutyl-1-Methylxanthine (Ibmx) and PDE6 Gamma-Subunit Inhibitory Peptide 70-87.

Enzymatic activity of Crystal Structure of Chimeric PDE5/PDE6 Catalytic Domain Complexed with 3-Isobutyl-1-Methylxanthine (Ibmx) and PDE6 Gamma-Subunit Inhibitory Peptide 70-87.

All present enzymatic activity of Crystal Structure of Chimeric PDE5/PDE6 Catalytic Domain Complexed with 3-Isobutyl-1-Methylxanthine (Ibmx) and PDE6 Gamma-Subunit Inhibitory Peptide 70-87.:
3.1.4.17; 3.1.4.35;

Protein crystallography data

The structure of Crystal Structure of Chimeric PDE5/PDE6 Catalytic Domain Complexed with 3-Isobutyl-1-Methylxanthine (Ibmx) and PDE6 Gamma-Subunit Inhibitory Peptide 70-87., PDB code: 3jwr was solved by B.Barren, L.Gakhar, H.Muradov, K.K.Boyd, S.Ramaswamy, N.O.Artemyev, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 40.41 / 2.99
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 47.257, 125.651, 153.854, 90.00, 90.00, 90.00
R / Rfree (%) 21.2 / 28

Other elements in 3jwr:

The structure of Crystal Structure of Chimeric PDE5/PDE6 Catalytic Domain Complexed with 3-Isobutyl-1-Methylxanthine (Ibmx) and PDE6 Gamma-Subunit Inhibitory Peptide 70-87. also contains other interesting chemical elements:

Zinc (Zn) 2 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of Chimeric PDE5/PDE6 Catalytic Domain Complexed with 3-Isobutyl-1-Methylxanthine (Ibmx) and PDE6 Gamma-Subunit Inhibitory Peptide 70-87. (pdb code 3jwr). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Crystal Structure of Chimeric PDE5/PDE6 Catalytic Domain Complexed with 3-Isobutyl-1-Methylxanthine (Ibmx) and PDE6 Gamma-Subunit Inhibitory Peptide 70-87., PDB code: 3jwr:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 3jwr

Go back to Magnesium Binding Sites List in 3jwr
Magnesium binding site 1 out of 2 in the Crystal Structure of Chimeric PDE5/PDE6 Catalytic Domain Complexed with 3-Isobutyl-1-Methylxanthine (Ibmx) and PDE6 Gamma-Subunit Inhibitory Peptide 70-87.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of Chimeric PDE5/PDE6 Catalytic Domain Complexed with 3-Isobutyl-1-Methylxanthine (Ibmx) and PDE6 Gamma-Subunit Inhibitory Peptide 70-87. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg900

b:18.6
occ:1.00
 OD1 A:ASP654 2.5 24.2 1.0
O A:HOH5 2.5 20.0 1.0
OE2 A:GLU682 3.0 47.1 1.0
OG1 A:THR723 3.4 30.4 1.0
CG A:ASP654 3.6 29.8 1.0
O A:THR723 3.8 40.4 1.0
CD A:GLU682 3.8 48.8 1.0
CG A:GLU682 3.8 46.7 1.0
OD2 A:ASP654 3.9 30.3 1.0
O A:HIS653 3.9 54.1 1.0
CD2 A:HIS685 3.9 42.7 1.0
NE2 A:HIS685 3.9 33.0 1.0
ZN A:ZN899 3.9 44.0 1.0
CB A:THR723 4.1 32.3 1.0
CD2 A:HIS653 4.1 26.6 1.0
C A:THR723 4.4 36.3 1.0
OD1 A:ASP764 4.6 39.3 1.0
CB A:ASP654 4.9 28.1 1.0
C A:HIS653 4.9 38.8 1.0
NE2 A:HIS653 4.9 25.9 1.0
CA A:THR723 4.9 40.2 1.0

Magnesium binding site 2 out of 2 in 3jwr

Go back to Magnesium Binding Sites List in 3jwr
Magnesium binding site 2 out of 2 in the Crystal Structure of Chimeric PDE5/PDE6 Catalytic Domain Complexed with 3-Isobutyl-1-Methylxanthine (Ibmx) and PDE6 Gamma-Subunit Inhibitory Peptide 70-87.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of Chimeric PDE5/PDE6 Catalytic Domain Complexed with 3-Isobutyl-1-Methylxanthine (Ibmx) and PDE6 Gamma-Subunit Inhibitory Peptide 70-87. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg900

b:21.6
occ:1.00
 O B:HOH12 2.4 20.3 1.0
O B:HOH16 2.4 16.8 1.0
O B:HOH15 2.4 37.2 1.0
O B:HOH11 2.5 32.3 1.0
OE2 B:GLU682 2.8 40.6 1.0
OD1 B:ASP654 2.9 27.2 1.0
O B:HOH17 3.4 19.1 1.0
O B:THR723 3.6 28.6 1.0
CD B:GLU682 3.8 44.7 1.0
CG B:ASP654 4.0 28.7 1.0
OG1 B:THR723 4.0 26.4 1.0
CG B:GLU682 4.1 41.1 1.0
ZN B:ZN899 4.2 41.8 1.0
O B:HOH9 4.2 22.2 1.0
OD2 B:ASP654 4.2 29.9 1.0
NE2 B:HIS685 4.2 32.3 1.0
C B:THR723 4.3 38.2 1.0
CD2 B:HIS685 4.4 38.9 1.0
CB B:THR723 4.5 27.2 1.0
O B:HIS653 4.6 36.2 1.0
OD1 B:ASP764 4.7 35.6 1.0
CD2 B:HIS653 4.7 25.5 1.0
CD2 B:HIS657 4.9 39.3 1.0
OE1 B:GLU682 4.9 29.7 1.0
N B:ASP724 5.0 32.3 1.0

Reference:

B.Barren, L.Gakhar, H.Muradov, K.K.Boyd, S.Ramaswamy, N.O.Artemyev. Structural Basis of Phosphodiesterase 6 Inhibition By the C-Terminal Region of the Gamma-Subunit Embo J. V. 28 3613 2009.
ISSN: ISSN 0261-4189
PubMed: 19798052
DOI: 10.1038/EMBOJ.2009.284
Page generated: Wed Aug 14 17:16:04 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy