Manganese in PDB 5b49: Crystal Structure of Lpxh with Manganese From Pseudomonas Aeruginosa

All present enzymatic activity of Crystal Structure of Lpxh with Manganese From Pseudomonas Aeruginosa:
3.6.1.54;

The structure of Crystal Structure of Lpxh with Manganese From Pseudomonas Aeruginosa, PDB code: 5b49 was solved by C.Okada, H.Wakabayashi, M.Yao, I.Tanaka, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.23 / 1.65
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	48.937, 108.862, 51.555, 90.00, 92.68, 90.00
R / Rfree (%)	15.2 / 17.7

The binding sites of Manganese atom in the Crystal Structure of Lpxh with Manganese From Pseudomonas Aeruginosa (pdb code 5b49). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 4 binding sites of Manganese where determined in the Crystal Structure of Lpxh with Manganese From Pseudomonas Aeruginosa, PDB code: 5b49:
Jump to Manganese binding site number: 1; 2; 3; 4;

Manganese binding site 1 out of 4 in the Crystal Structure of Lpxh with Manganese From Pseudomonas Aeruginosa


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Crystal Structure of Lpxh with Manganese From Pseudomonas Aeruginosa within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn301 b:11.8 occ:1.00 OD1 A:ASP8 2.2 11.2 1.0 O A:HOH544 2.2 14.9 1.0 NE2 A:HIS10 2.3 10.9 1.0 O A:HOH449 2.3 11.7 1.0 NE2 A:HIS197 2.3 13.1 1.0 OD2 A:ASP41 2.3 12.6 1.0 CE1 A:HIS10 3.1 11.0 1.0 CE1 A:HIS197 3.2 13.6 1.0 CG A:ASP8 3.2 11.8 1.0 CG A:ASP41 3.3 11.2 1.0 CD2 A:HIS10 3.3 12.0 1.0 CD2 A:HIS197 3.4 12.3 1.0 MN A:MN302 3.5 13.7 1.0 CB A:ASP41 3.6 10.4 1.0 CB A:ASP8 3.7 10.2 1.0 O46 A:LP5303 4.1 28.1 1.0 CA A:ASP8 4.2 10.3 1.0 O A:HIS195 4.2 12.6 1.0 ND1 A:HIS10 4.3 11.9 1.0 OD2 A:ASP8 4.3 11.2 1.0 ND1 A:HIS197 4.3 13.2 1.0 O A:HOH576 4.3 24.0 1.0 CG A:HIS10 4.4 10.6 1.0 CG A:HIS197 4.5 11.8 1.0 OD1 A:ASP41 4.5 12.5 1.0 CE1 A:HIS114 4.6 10.2 1.0 CA A:HIS195 4.7 10.6 1.0 NE2 A:HIS114 4.7 11.9 1.0 C A:HIS195 4.8 12.7 1.0

Manganese binding site 2 out of 4 in the Crystal Structure of Lpxh with Manganese From Pseudomonas Aeruginosa


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Crystal Structure of Lpxh with Manganese From Pseudomonas Aeruginosa within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn302 b:13.7 occ:1.00 OD1 A:ASN79 2.1 18.4 1.0 O A:HOH449 2.2 11.7 1.0 OD2 A:ASP41 2.2 12.6 1.0 NE2 A:HIS114 2.2 11.9 1.0 ND1 A:HIS195 2.3 11.5 1.0 CG A:ASP41 3.1 11.2 1.0 CE1 A:HIS195 3.1 13.7 1.0 CE1 A:HIS114 3.1 10.2 1.0 CG A:ASN79 3.2 16.2 1.0 CD2 A:HIS114 3.3 11.2 1.0 O46 A:LP5303 3.3 28.1 1.0 OD1 A:ASP41 3.4 12.5 1.0 CG A:HIS195 3.4 12.4 1.0 MN A:MN301 3.5 11.8 1.0 ND2 A:ASN79 3.7 16.5 1.0 CA A:HIS195 3.7 10.6 1.0 CB A:HIS195 3.8 11.5 1.0 OD1 A:ASP8 3.8 11.2 1.0 O A:HIS195 4.1 12.6 1.0 O A:HOH544 4.2 14.9 1.0 ND1 A:HIS114 4.3 12.6 1.0 NE2 A:HIS195 4.3 13.8 1.0 N A:ASN79 4.3 12.3 1.0 CB A:ASP41 4.3 10.4 1.0 CG A:HIS114 4.4 11.9 1.0 CB A:ASN79 4.4 16.9 1.0 C A:HIS195 4.4 12.7 1.0 CD2 A:HIS195 4.4 14.4 1.0 P45 A:LP5303 4.6 26.1 1.0 O48 A:LP5303 4.7 21.1 1.0 N A:HIS195 4.7 10.1 1.0 CA A:ASN79 4.9 14.0 1.0

Manganese binding site 3 out of 4 in the Crystal Structure of Lpxh with Manganese From Pseudomonas Aeruginosa


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 3 of Crystal Structure of Lpxh with Manganese From Pseudomonas Aeruginosa within 5.0Å range: probe atom residue distance (Å) B Occ B:Mn301 b:12.7 occ:1.00 O B:HOH511 2.2 13.4 1.0 OD1 B:ASP8 2.2 9.6 1.0 O B:HOH583 2.3 15.6 1.0 NE2 B:HIS10 2.3 12.1 1.0 NE2 B:HIS197 2.3 12.9 1.0 OD2 B:ASP41 2.3 13.0 1.0 CE1 B:HIS10 3.1 12.7 1.0 CE1 B:HIS197 3.2 15.1 1.0 CG B:ASP8 3.3 9.6 1.0 CG B:ASP41 3.3 10.9 1.0 CD2 B:HIS197 3.4 12.2 1.0 CD2 B:HIS10 3.4 12.5 1.0 MN B:MN302 3.4 14.6 1.0 CB B:ASP41 3.6 9.6 1.0 CB B:ASP8 3.8 9.2 1.0 CA B:ASP8 4.2 8.4 1.0 O B:HIS195 4.3 12.3 1.0 ND1 B:HIS10 4.3 13.6 1.0 O B:HOH613 4.3 25.0 1.0 OD2 B:ASP8 4.3 10.1 1.0 ND1 B:HIS197 4.4 13.9 1.0 OD1 B:ASP41 4.5 10.8 1.0 CG B:HIS10 4.5 11.8 1.0 CG B:HIS197 4.5 12.6 1.0 O48 B:LP5303 4.6 38.2 1.0 CA B:HIS195 4.7 9.0 1.0 CE1 B:HIS114 4.7 12.1 1.0 NE2 B:HIS114 4.7 11.2 1.0 C B:HIS195 4.8 11.7 1.0

Manganese binding site 4 out of 4 in the Crystal Structure of Lpxh with Manganese From Pseudomonas Aeruginosa


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 4 of Crystal Structure of Lpxh with Manganese From Pseudomonas Aeruginosa within 5.0Å range: probe atom residue distance (Å) B Occ B:Mn302 b:14.6 occ:1.00 OD1 B:ASN79 2.0 18.5 1.0 O B:HOH511 2.1 13.4 1.0 OD2 B:ASP41 2.2 13.0 1.0 NE2 B:HIS114 2.2 11.2 1.0 ND1 B:HIS195 2.3 13.6 1.0 CG B:ASP41 3.1 10.9 1.0 CE1 B:HIS114 3.1 12.1 1.0 CE1 B:HIS195 3.1 13.9 1.0 CG B:ASN79 3.2 19.8 1.0 CD2 B:HIS114 3.3 10.9 1.0 OD1 B:ASP41 3.4 10.8 1.0 MN B:MN301 3.4 12.7 1.0 CG B:HIS195 3.4 10.8 1.0 CA B:HIS195 3.7 9.0 1.0 ND2 B:ASN79 3.7 19.8 1.0 CB B:HIS195 3.8 9.8 1.0 OD1 B:ASP8 3.8 9.6 1.0 O B:HOH583 4.1 15.6 1.0 O B:HIS195 4.2 12.3 1.0 O48 B:LP5303 4.2 38.2 1.0 ND1 B:HIS114 4.3 9.5 1.0 NE2 B:HIS195 4.3 12.8 1.0 CB B:ASP41 4.3 9.6 1.0 N B:ASN79 4.3 11.5 1.0 CG B:HIS114 4.4 9.8 1.0 CB B:ASN79 4.4 15.5 1.0 C B:HIS195 4.4 11.7 1.0 CD2 B:HIS195 4.4 12.3 1.0 N B:HIS195 4.7 10.3 1.0 CA B:ASN79 4.9 12.7 1.0 CG B:ASP8 5.0 9.6 1.0

C.Okada, H.Wakabayashi, M.Kobayashi, A.Shinoda, I.Tanaka, M.Yao. Crystal Structures of the Udp-Diacylglucosamine Pyrophosphohydrase Lpxh From Pseudomonas Aeruginosa Sci Rep V. 6 32822 2016.
ISSN: ESSN 2045-2322
PubMed: 27609419
DOI: 10.1038/SREP32822