Manganese in PDB 7d62: Pgpg-Specific Phosphodiesterase - Pggh From Vibrio Cholrae

The structure of Pgpg-Specific Phosphodiesterase - Pggh From Vibrio Cholrae, PDB code: 7d62 was solved by N.-C.Ha, Y.Jang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	38.25 / 1.90
Space group	P 21 21 2
Cell size a, b, c (Å), α, β, γ (°)	68.367, 148.830, 58.845, 90.00, 90.00, 90.00
R / Rfree (%)	19.6 / 23.9

The binding sites of Manganese atom in the Pgpg-Specific Phosphodiesterase - Pggh From Vibrio Cholrae (pdb code 7d62). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 2 binding sites of Manganese where determined in the Pgpg-Specific Phosphodiesterase - Pggh From Vibrio Cholrae, PDB code: 7d62:
Jump to Manganese binding site number: 1; 2;

Manganese binding site 1 out of 2 in the Pgpg-Specific Phosphodiesterase - Pggh From Vibrio Cholrae


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Pgpg-Specific Phosphodiesterase - Pggh From Vibrio Cholrae within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn401 b:18.7 occ:0.86 NE2 A:HIS68 2.2 20.2 1.0 OD2 A:ASP121 2.3 32.6 1.0 OD1 A:ASN55 2.3 11.0 1.0 NE2 A:HIS69 2.4 29.8 1.0 CE1 A:HIS68 3.0 20.1 1.0 CD2 A:HIS68 3.2 19.0 1.0 CG A:ASN55 3.2 13.5 1.0 CG A:ASP121 3.2 32.3 1.0 CE1 A:HIS69 3.3 31.1 1.0 CD2 A:HIS69 3.4 31.7 1.0 ND2 A:ASN55 3.5 10.5 1.0 OD1 A:ASP121 3.7 32.4 1.0 OD2 A:ASP15 4.1 14.7 1.0 ND1 A:HIS68 4.2 19.4 1.0 CG A:HIS68 4.3 18.1 1.0 O A:HOH527 4.3 14.5 1.0 ND1 A:HIS69 4.4 33.0 1.0 CB A:ASP121 4.5 31.3 1.0 O A:HOH508 4.5 21.7 1.0 CG A:HIS69 4.5 32.5 1.0 CB A:ASN55 4.6 12.3 1.0

Manganese binding site 2 out of 2 in the Pgpg-Specific Phosphodiesterase - Pggh From Vibrio Cholrae


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Pgpg-Specific Phosphodiesterase - Pggh From Vibrio Cholrae within 5.0Å range: probe atom residue distance (Å) B Occ B:Mn401 b:61.2 occ:1.00 OD1 B:ASN55 2.3 31.9 1.0 NE2 B:HIS68 2.3 36.4 1.0 NE2 B:HIS69 2.6 62.5 1.0 CE1 B:HIS68 3.1 37.9 1.0 CG B:ASN55 3.2 30.3 1.0 CD2 B:HIS68 3.3 37.6 1.0 CE1 B:HIS69 3.4 63.9 1.0 ND2 B:ASN55 3.5 31.3 1.0 CD2 B:HIS69 3.5 64.1 1.0 OD2 B:ASP15 4.2 35.9 1.0 ND1 B:HIS68 4.3 38.7 1.0 CG B:HIS68 4.4 39.7 1.0 ND1 B:HIS69 4.5 66.0 1.0 CB B:ASN55 4.6 27.3 1.0 CG B:HIS69 4.6 64.6 1.0 NH2 B:ARG11 4.7 43.2 1.0 CZ B:ARG11 4.9 41.4 1.0

J.-W.Lee, K.Heo, Y.Jang, N.-C.Ha, Y.-J.Seok. A Pgpg-Specific Phosphodiesterase To Be Published.