Magnesium in PDB 8hrv: Dutpase of Helicobacter Pylori 26695

All present enzymatic activity of Dutpase of Helicobacter Pylori 26695:
3.6.1.23;

The structure of Dutpase of Helicobacter Pylori 26695, PDB code: 8hrv was solved by K.Kumari, S.Gourinath, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	59.28 / 2.00
Space group	P 63
Cell size a, b, c (Å), α, β, γ (°)	103.869, 103.869, 78.651, 90, 90, 120
R / Rfree (%)	14.5 / 18.1

The binding sites of Magnesium atom in the Dutpase of Helicobacter Pylori 26695 (pdb code 8hrv). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the Dutpase of Helicobacter Pylori 26695, PDB code: 8hrv:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in the Dutpase of Helicobacter Pylori 26695


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Dutpase of Helicobacter Pylori 26695 within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg302 b:17.9 occ:1.00 O B:HOH370 2.0 14.7 1.0 O1G B:DUP203 2.1 16.7 1.0 O2B B:DUP203 2.1 20.5 1.0 O2A B:DUP203 2.1 17.7 1.0 O A:HOH431 2.1 16.0 1.0 O A:HOH425 2.2 20.5 1.0 PB B:DUP203 3.2 23.4 1.0 PG B:DUP203 3.2 19.8 1.0 PA B:DUP203 3.4 21.3 1.0 O3B B:DUP203 3.5 21.2 1.0 N3A B:DUP203 3.6 19.6 1.0 O3G B:DUP203 3.8 19.9 1.0 NH1 B:ARG132 4.0 20.0 1.0 O A:HOH441 4.1 23.2 1.0 OD1 A:ASP26 4.2 22.6 1.0 O C:HOH314 4.3 29.2 1.0 OG1 B:THR140 4.3 20.9 1.0 OE1 A:GLN110 4.3 16.0 1.0 NE A:ARG62 4.3 18.9 1.0 NH2 A:ARG62 4.3 19.2 1.0 OD2 A:ASP26 4.4 20.6 1.0 C5' B:DUP203 4.4 17.5 1.0 O5' B:DUP203 4.4 17.7 1.0 O1A B:DUP203 4.5 25.2 1.0 O2G B:DUP203 4.5 17.9 1.0 O1B B:DUP203 4.5 23.4 1.0 CG A:ASP26 4.7 20.3 1.0 CZ A:ARG62 4.8 21.1 1.0 CD A:GLN110 4.9 20.8 1.0 NE2 A:GLN110 4.9 22.1 1.0 OD2 C:ASP81 5.0 20.2 1.0

Magnesium binding site 2 out of 3 in the Dutpase of Helicobacter Pylori 26695


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Dutpase of Helicobacter Pylori 26695 within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg201 b:14.9 occ:1.00 O1B C:DUP201 2.0 14.4 1.0 O C:HOH351 2.1 15.4 1.0 O2A C:DUP201 2.1 12.5 1.0 O2G C:DUP201 2.2 13.9 1.0 O B:HOH326 2.2 14.3 1.0 O B:HOH335 2.2 13.2 1.0 PB C:DUP201 3.2 16.7 1.0 PG C:DUP201 3.3 15.9 1.0 PA C:DUP201 3.4 14.6 1.0 O3B C:DUP201 3.5 14.1 1.0 N3A C:DUP201 3.7 14.3 1.0 O1G C:DUP201 3.9 15.1 1.0 NH2 C:ARG132 4.0 17.1 1.0 OD1 B:ASP26 4.1 16.1 1.0 O B:HOH344 4.1 16.5 1.0 O A:HOH427 4.1 19.3 1.0 NE B:ARG62 4.1 15.2 1.0 OE1 B:GLN110 4.2 16.3 1.0 NH2 B:ARG62 4.3 16.1 1.0 C5' C:DUP201 4.3 13.5 1.0 O5' C:DUP201 4.4 13.4 1.0 OG1 C:THR140 4.4 18.0 1.0 OD2 B:ASP26 4.4 16.6 1.0 O1A C:DUP201 4.5 15.6 1.0 O3G C:DUP201 4.5 15.5 1.0 O2B C:DUP201 4.5 15.7 1.0 CG B:ASP26 4.7 18.6 1.0 CZ B:ARG62 4.7 15.3 1.0 CD B:GLN110 4.8 18.6 1.0 NE2 B:GLN110 4.9 17.3 1.0

Magnesium binding site 3 out of 3 in the Dutpase of Helicobacter Pylori 26695


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Dutpase of Helicobacter Pylori 26695 within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg202 b:23.7 occ:1.00 O2B A:DUP301 1.9 26.3 1.0 O1A A:DUP301 2.1 25.2 1.0 O3G A:DUP301 2.1 25.7 1.0 O C:HOH304 2.1 22.9 1.0 O A:HOH457 2.2 21.2 1.0 O C:HOH310 2.2 27.4 1.0 PB A:DUP301 3.1 27.9 1.0 PG A:DUP301 3.2 29.7 1.0 PA A:DUP301 3.3 24.3 1.0 O3B A:DUP301 3.4 29.8 1.0 N3A A:DUP301 3.5 27.1 1.0 O2G A:DUP301 3.7 29.6 1.0 NE C:ARG62 4.1 24.3 1.0 NH2 A:ARG132 4.1 32.5 1.0 OD1 C:ASP26 4.1 31.6 1.0 NH2 C:ARG62 4.2 27.3 1.0 OD2 C:ASP26 4.3 29.7 1.0 OG1 A:THR140 4.3 29.1 1.0 O5' A:DUP301 4.3 21.9 1.0 C5' A:DUP301 4.4 22.5 1.0 O2A A:DUP301 4.4 30.2 1.0 O C:HOH353 4.4 36.8 1.0 NE2 C:GLN110 4.4 22.1 1.0 O1G A:DUP301 4.4 27.4 1.0 O B:HOH353 4.4 40.2 1.0 O1B A:DUP301 4.4 29.0 1.0 CZ C:ARG62 4.7 27.3 1.0 CG C:ASP26 4.7 29.6 1.0 OE1 C:GLN110 4.7 28.9 1.0 CD C:GLN110 4.8 29.7 1.0

K.Kumari, S.Gourinath. Dutpase of Helicobacter Pylori 26695 To Be Published.