Manganese in PDB 7cj4: Crystal Structure of Homo Dimeric D-Allulose 3-Epimerase From Methylomonas Sp.

The structure of Crystal Structure of Homo Dimeric D-Allulose 3-Epimerase From Methylomonas Sp., PDB code: 7cj4 was solved by H.Yoshida, A.Yoshihara, S.Kamitori, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	43.45 / 2.08
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	45.73, 80.72, 139.45, 90, 90, 90
R / Rfree (%)	18.5 / 26.9

The binding sites of Manganese atom in the Crystal Structure of Homo Dimeric D-Allulose 3-Epimerase From Methylomonas Sp. (pdb code 7cj4). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 2 binding sites of Manganese where determined in the Crystal Structure of Homo Dimeric D-Allulose 3-Epimerase From Methylomonas Sp., PDB code: 7cj4:
Jump to Manganese binding site number: 1; 2;

Manganese binding site 1 out of 2 in the Crystal Structure of Homo Dimeric D-Allulose 3-Epimerase From Methylomonas Sp.


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 Homo Dimeric D-Allulose 3-Epimerase From Methylomonas Sp. within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn301 b:31.9 occ:1.00 OE2 A:GLU246 1.9 24.7 1.0 OE2 A:GLU152 2.1 24.1 1.0 OD2 A:ASP185 2.1 24.4 1.0 ND1 A:HIS211 2.2 22.4 1.0 O A:HOH492 2.2 19.3 0.5 O A:HOH492 2.4 16.2 0.5 CD A:GLU246 2.8 27.6 1.0 OE1 A:GLU246 3.0 31.9 1.0 CE1 A:HIS211 3.0 23.7 1.0 CD A:GLU152 3.1 22.5 1.0 CG A:HIS211 3.2 22.1 1.0 CG A:ASP185 3.3 23.2 1.0 OE1 A:GLU152 3.4 24.0 1.0 CB A:HIS211 3.6 19.0 1.0 NH2 A:ARG217 3.9 36.5 1.0 CB A:ASP185 3.9 20.3 1.0 O A:HOH455 4.0 32.1 1.0 CG A:GLU246 4.2 30.1 1.0 NE2 A:HIS211 4.2 23.5 1.0 OD1 A:ASP185 4.3 22.6 1.0 CD2 A:HIS211 4.3 21.3 1.0 CG A:GLU152 4.4 21.8 1.0 CD2 A:HIS188 4.6 22.4 1.0 NE2 A:HIS188 4.6 22.6 1.0 CB A:GLU246 4.7 29.0 1.0 NE2 A:HIS183 4.8 25.0 1.0 CE1 A:HIS183 4.9 23.7 1.0

Manganese binding site 2 out of 2 in the Crystal Structure of Homo Dimeric D-Allulose 3-Epimerase From Methylomonas Sp.


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 Homo Dimeric D-Allulose 3-Epimerase From Methylomonas Sp. within 5.0Å range: probe atom residue distance (Å) B Occ B:Mn301 b:29.5 occ:1.00 OD2 B:ASP185 2.0 23.0 1.0 OE2 B:GLU152 2.0 28.6 1.0 OE1 B:GLU246 2.1 31.8 1.0 O B:HOH401 2.2 12.3 0.5 O B:HOH401 2.2 18.4 0.5 ND1 B:HIS211 2.3 22.2 1.0 CD B:GLU152 3.0 27.4 1.0 CD B:GLU246 3.0 29.4 1.0 CG B:ASP185 3.1 24.4 1.0 CE1 B:HIS211 3.2 22.8 1.0 OE2 B:GLU246 3.2 30.4 1.0 CG B:HIS211 3.3 22.8 1.0 OE1 B:GLU152 3.3 30.2 1.0 CB B:HIS211 3.6 21.0 1.0 CB B:ASP185 3.7 24.5 1.0 NH1 B:ARG217 4.0 27.5 1.0 O B:HOH481 4.1 27.7 1.0 OD1 B:ASP185 4.2 25.2 1.0 CG B:GLU152 4.4 24.7 1.0 NE2 B:HIS211 4.4 23.7 1.0 CG B:GLU246 4.4 28.2 1.0 CD2 B:HIS211 4.4 21.8 1.0 CD2 B:HIS188 4.5 21.2 1.0 NE2 B:HIS183 4.6 23.5 1.0 NE2 B:HIS188 4.6 20.7 1.0 CB B:GLU246 4.8 27.8 1.0 CE1 B:HIS183 4.8 22.3 1.0

H.Yoshida, A.Yoshihara, S.Kato, S.Mochizuki, K.Akimitsu, K.Izumori, S.Kamitori. Crystal Structure of A Novel Homodimeric L-Ribulose 3-Epimerase From Methylomonus Sp. Febs Open Bio 2021.
ISSN: ESSN 2211-5463
PubMed: 33838083
DOI: 10.1002/2211-5463.13159