Iron in PDB 3fm3: Crystal Structure of An Encephalitozoon Cuniculi Methionine Aminopeptidase Type 2

All present enzymatic activity of Crystal Structure of An Encephalitozoon Cuniculi Methionine Aminopeptidase Type 2:
3.4.11.18;

The structure of Crystal Structure of An Encephalitozoon Cuniculi Methionine Aminopeptidase Type 2, PDB code: 3fm3 was solved by J.J.Alvarado, M.Russell, A.Zhang, J.Adams, R.Toro, S.K.Burley, L.M.Weiss, S.C.Almo, New York Sgx Research Center For Structural Genomics(Nysgxrc), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 2.18
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	62.204, 94.274, 66.496, 90.00, 99.22, 90.00
R / Rfree (%)	18.7 / 24.2

The binding sites of Iron atom in the Crystal Structure of An Encephalitozoon Cuniculi Methionine Aminopeptidase Type 2 (pdb code 3fm3). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 4 binding sites of Iron where determined in the Crystal Structure of An Encephalitozoon Cuniculi Methionine Aminopeptidase Type 2, PDB code: 3fm3:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in the Crystal Structure of An Encephalitozoon Cuniculi Methionine Aminopeptidase Type 2


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Crystal Structure of An Encephalitozoon Cuniculi Methionine Aminopeptidase Type 2 within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe451 b:46.1 occ:1.00 OD2 A:ASP141 2.2 27.5 1.0 OE2 A:GLU339 2.2 24.3 1.0 NE2 A:HIS210 2.4 41.2 1.0 O A:HOH498 2.9 39.3 1.0 OE1 A:GLU243 2.9 36.9 1.0 FE A:FE452 3.1 30.5 1.0 CD A:GLU339 3.2 22.5 1.0 CG A:ASP141 3.3 23.5 1.0 CD2 A:HIS210 3.3 41.5 1.0 CD A:GLU243 3.4 35.9 1.0 OE1 A:GLU339 3.4 22.0 1.0 CE1 A:HIS210 3.5 41.2 1.0 OE2 A:GLU243 3.6 38.5 1.0 OD1 A:ASP141 3.7 22.9 1.0 CB A:ALA241 4.0 28.3 1.0 CB A:ASP141 4.5 21.0 1.0 CG A:HIS210 4.5 41.3 1.0 CG A:GLU243 4.5 32.2 1.0 CG A:GLU339 4.6 20.0 1.0 ND1 A:HIS210 4.6 41.3 1.0 CB A:GLU243 4.7 30.1 1.0 OD2 A:ASP130 5.0 19.9 1.0

Iron binding site 2 out of 4 in the Crystal Structure of An Encephalitozoon Cuniculi Methionine Aminopeptidase Type 2


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Crystal Structure of An Encephalitozoon Cuniculi Methionine Aminopeptidase Type 2 within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe452 b:30.5 occ:1.00 OD1 A:ASP141 2.0 22.9 1.0 OE1 A:GLU339 2.1 22.0 1.0 OD1 A:ASP130 2.2 18.9 1.0 OD2 A:ASP130 2.6 19.9 1.0 CG A:ASP130 2.7 17.6 1.0 CG A:ASP141 2.8 23.5 1.0 O A:HOH498 2.8 39.3 1.0 OD2 A:ASP141 2.9 27.5 1.0 CD A:GLU339 3.0 22.5 1.0 FE A:FE451 3.1 46.1 1.0 OE2 A:GLU339 3.3 24.3 1.0 CZ A:PHE97 3.6 21.5 1.0 OE2 A:GLU243 3.9 38.5 1.0 CE1 A:PHE97 4.2 22.3 1.0 CB A:ASP130 4.2 16.2 1.0 CB A:ASP141 4.2 21.0 1.0 O A:HOH497 4.4 37.7 1.0 CG A:GLU339 4.4 20.0 1.0 NE2 A:GLN337 4.4 14.7 1.0 CD A:GLU243 4.4 35.9 1.0 CE2 A:PHE97 4.5 21.0 1.0 N A:SER142 4.6 19.1 1.0 O A:HOH412 4.6 29.7 1.0 CB A:ALA143 4.7 17.6 1.0 C A:ASP141 4.7 19.9 1.0 CA A:ASP141 4.8 20.5 1.0 OE1 A:GLU243 4.8 36.9 1.0 CB A:GLU339 4.8 18.9 1.0 CA A:ASP130 4.9 16.2 1.0 O A:SER142 4.9 18.6 1.0 C A:SER142 5.0 18.9 1.0

Iron binding site 3 out of 4 in the Crystal Structure of An Encephalitozoon Cuniculi Methionine Aminopeptidase Type 2


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Crystal Structure of An Encephalitozoon Cuniculi Methionine Aminopeptidase Type 2 within 5.0Å range: probe atom residue distance (Å) B Occ B:Fe551 b:35.6 occ:1.00 NE2 B:HIS210 2.2 30.7 1.0 OE2 B:GLU339 2.3 20.8 1.0 O B:HOH537 2.3 31.9 1.0 OD2 B:ASP141 2.3 23.0 1.0 OE2 B:GLU243 2.7 27.9 1.0 CD2 B:HIS210 3.2 30.1 1.0 FE B:FE552 3.2 26.4 1.0 CD B:GLU339 3.2 19.8 1.0 CG B:ASP141 3.3 19.0 1.0 CE1 B:HIS210 3.3 29.9 1.0 CD B:GLU243 3.3 27.0 1.0 OE1 B:GLU339 3.5 22.5 1.0 OD1 B:ASP141 3.6 22.8 1.0 OE1 B:GLU243 3.8 28.5 1.0 CB B:ALA241 3.9 18.1 1.0 CG B:GLU243 4.2 22.7 1.0 CG B:HIS210 4.4 28.6 1.0 ND1 B:HIS210 4.4 30.9 1.0 CB B:ASP141 4.5 15.6 1.0 CG B:GLU339 4.6 15.7 1.0 NE2 B:HIS218 4.9 39.8 1.0 CB B:GLU243 5.0 20.3 1.0 OD2 B:ASP130 5.0 15.5 1.0

Iron binding site 4 out of 4 in the Crystal Structure of An Encephalitozoon Cuniculi Methionine Aminopeptidase Type 2


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Crystal Structure of An Encephalitozoon Cuniculi Methionine Aminopeptidase Type 2 within 5.0Å range: probe atom residue distance (Å) B Occ B:Fe552 b:26.4 occ:1.00 OE1 B:GLU339 1.9 22.5 1.0 OD1 B:ASP130 2.1 11.7 1.0 OD1 B:ASP141 2.1 22.8 1.0 O B:HOH537 2.3 31.9 1.0 OD2 B:ASP130 2.5 15.5 1.0 CG B:ASP130 2.6 13.2 1.0 CD B:GLU339 2.9 19.8 1.0 CG B:ASP141 3.0 19.0 1.0 OD2 B:ASP141 3.2 23.0 1.0 FE B:FE551 3.2 35.6 1.0 OE2 B:GLU339 3.3 20.8 1.0 CZ B:PHE97 3.6 23.0 1.0 CB B:ASP130 4.1 13.1 1.0 CE1 B:PHE97 4.2 22.0 1.0 CG B:GLU339 4.2 15.7 1.0 OE1 B:GLU243 4.3 28.5 1.0 CB B:ASP141 4.4 15.6 1.0 NE2 B:GLN337 4.4 8.7 1.0 CE2 B:PHE97 4.5 22.8 1.0 CB B:ALA143 4.6 11.7 1.0 N B:SER142 4.7 13.7 1.0 C B:ASP141 4.7 14.4 1.0 CD B:GLU243 4.7 27.0 1.0 OE2 B:GLU243 4.8 27.9 1.0 CB B:GLU339 4.8 15.0 1.0 O B:SER142 4.8 12.4 1.0 CA B:ASP141 4.8 15.1 1.0 CA B:ASP130 4.8 13.7 1.0 C B:SER142 4.9 12.7 1.0

J.J.Alvarado, A.Nemkal, J.M.Sauder, M.Russell, D.E.Akiyoshi, W.Shi, S.C.Almo, L.M.Weiss. Structure of A Microsporidian Methionine Aminopeptidase Type 2 Complexed with Fumagillin and Tnp-470. Mol.Biochem.Parasitol. V. 168 158 2009.
ISSN: ISSN 0166-6851
PubMed: 19660503
DOI: 10.1016/J.MOLBIOPARA.2009.07.008