Manganese in PDB 2q92: E. Coli Methionine Aminopeptidase Mn-Form with Inhibitor B23

All present enzymatic activity of E. Coli Methionine Aminopeptidase Mn-Form with Inhibitor B23:
3.4.11.18;

The structure of E. Coli Methionine Aminopeptidase Mn-Form with Inhibitor B23, PDB code: 2q92 was solved by Q.-Z.Ye, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	26.40 / 1.90
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	38.137, 60.984, 50.693, 90.00, 104.93, 90.00
R / Rfree (%)	20.3 / 23.8

The structure of E. Coli Methionine Aminopeptidase Mn-Form with Inhibitor B23 also contains other interesting chemical elements:

Sodium

(Na)

1 atom

The binding sites of Manganese atom in the E. Coli Methionine Aminopeptidase Mn-Form with Inhibitor B23 (pdb code 2q92). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 2 binding sites of Manganese where determined in the E. Coli Methionine Aminopeptidase Mn-Form with Inhibitor B23, PDB code: 2q92:
Jump to Manganese binding site number: 1; 2;

Manganese binding site 1 out of 2 in the E. Coli Methionine Aminopeptidase Mn-Form with Inhibitor B23


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of E. Coli Methionine Aminopeptidase Mn-Form with Inhibitor B23 within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn300 b:13.4 occ:1.00 OE2 A:GLU204 2.2 17.1 1.0 OD2 A:ASP108 2.2 9.1 1.0 OE2 A:GLU235 2.2 9.4 1.0 OAO A:B23400 2.2 17.2 1.0 NE2 A:HIS171 2.3 13.2 1.0 OAN A:B23400 2.3 12.3 1.0 CAE A:B23400 2.6 19.3 1.0 CD A:GLU204 2.9 17.6 1.0 OE1 A:GLU204 3.1 21.0 1.0 CD A:GLU235 3.2 8.6 1.0 CG A:ASP108 3.2 11.7 1.0 CD2 A:HIS171 3.2 12.3 1.0 CE1 A:HIS171 3.3 16.6 1.0 OE1 A:GLU235 3.4 10.1 1.0 MN A:MN301 3.6 13.9 1.0 OD1 A:ASP108 3.6 9.6 1.0 OG1 A:THR202 3.8 14.7 1.0 CAA A:B23400 4.1 19.8 1.0 CG2 A:THR202 4.2 14.4 1.0 CB A:THR202 4.3 11.8 1.0 CG A:GLU204 4.3 15.2 1.0 CB A:ASP108 4.4 10.1 1.0 ND1 A:HIS171 4.4 12.3 1.0 CG A:HIS171 4.4 12.8 1.0 CG A:GLU235 4.5 8.8 1.0 CE1 A:PHE177 4.6 14.5 1.0 NE2 A:HIS178 4.6 23.9 1.0 O A:HOH510 4.7 13.3 1.0 O A:HOH633 4.7 19.8 1.0 OAM A:B23400 4.9 21.7 1.0 CB A:GLU204 5.0 11.6 1.0

Manganese binding site 2 out of 2 in the E. Coli Methionine Aminopeptidase Mn-Form with Inhibitor B23


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of E. Coli Methionine Aminopeptidase Mn-Form with Inhibitor B23 within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn301 b:13.9 occ:1.00 OD1 A:ASP97 2.2 10.7 1.0 OAN A:B23400 2.2 12.3 1.0 O A:HOH510 2.2 13.3 1.0 OE1 A:GLU235 2.2 10.1 1.0 OD1 A:ASP108 2.2 9.6 1.0 OD2 A:ASP97 2.5 13.4 1.0 CG A:ASP97 2.6 10.5 1.0 CD A:GLU235 3.2 8.6 1.0 CG A:ASP108 3.2 11.7 1.0 CAE A:B23400 3.2 19.3 1.0 OD2 A:ASP108 3.5 9.1 1.0 OE2 A:GLU235 3.5 9.4 1.0 MN A:MN300 3.6 13.4 1.0 O A:HOH502 3.8 16.7 1.0 OG1 A:THR99 3.8 13.6 1.0 CAC A:B23400 3.8 22.5 1.0 CAA A:B23400 3.9 19.8 1.0 CB A:ASP97 4.1 9.3 1.0 OAO A:B23400 4.2 17.2 1.0 O A:VAL98 4.3 10.2 1.0 O A:HOH526 4.3 14.3 1.0 N A:THR109 4.4 10.8 1.0 OE1 A:GLU204 4.5 21.0 1.0 CG A:GLU235 4.5 8.8 1.0 CB A:ASP108 4.6 10.1 1.0 O A:HOH554 4.6 20.0 1.0 O A:THR109 4.6 10.8 1.0 C A:THR109 4.7 9.9 1.0 C A:ASP108 4.7 11.2 1.0 N A:VAL98 4.8 11.7 1.0 CA A:ASP97 4.8 9.4 1.0 O A:HOH633 4.8 19.8 1.0 CA A:THR109 4.9 10.9 1.0 C A:ASP97 4.9 8.0 1.0 C A:VAL98 4.9 10.7 1.0 CA A:ASP108 4.9 11.2 1.0 CB A:GLU235 4.9 7.5 1.0 CB A:SER110 5.0 11.3 1.0

Z.Q.Ma, S.X.Xie, Q.Q.Huang, F.J.Nan, T.D.Hurley, Q.Z.Ye. Structural Analysis of Inhibition of E. Coli Methionine Aminopeptidase: Implication of Loop Flexibility in Selective Inhibition of Bacterial Enzymes. Bmc Struct.Biol. V. 7 84 2007.
ISSN: ESSN 1472-6807
PubMed: 18093325
DOI: 10.1186/1472-6807-7-84