Manganese in PDB 3cm5: Crystal Structure of Cell-Death Related Nuclease 4 (Crn-4) Bound with Mn

The structure of Crystal Structure of Cell-Death Related Nuclease 4 (Crn-4) Bound with Mn, PDB code: 3cm5 was solved by Y.-Y.Hsiao, H.S.Yuan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	30.00 / 2.81
Space group	P 21 21 2
Cell size a, b, c (Å), α, β, γ (°)	125.132, 165.432, 64.589, 90.00, 90.00, 90.00
R / Rfree (%)	20.1 / 23.9

The structure of Crystal Structure of Cell-Death Related Nuclease 4 (Crn-4) Bound with Mn also contains other interesting chemical elements:

Zinc

(Zn)

2 atoms

The binding sites of Manganese atom in the Crystal Structure of Cell-Death Related Nuclease 4 (Crn-4) Bound with Mn (pdb code 3cm5). 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 Cell-Death Related Nuclease 4 (Crn-4) Bound with Mn, PDB code: 3cm5:
Jump to Manganese binding site number: 1; 2;

Manganese binding site 1 out of 2 in the Crystal Structure of Cell-Death Related Nuclease 4 (Crn-4) Bound with Mn


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 Cell-Death Related Nuclease 4 (Crn-4) Bound with Mn within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn300 b:38.9 occ:1.00 OD2 A:ASP15 2.0 40.9 1.0 OE2 A:GLU17 2.0 39.2 1.0 OD2 A:ASP184 2.0 39.0 1.0 O A:HOH315 2.5 41.4 1.0 CG A:ASP15 3.0 39.0 1.0 CD A:GLU17 3.1 39.6 1.0 CG A:ASP184 3.1 40.0 1.0 OD1 A:ASP15 3.3 40.4 1.0 OE1 A:GLU17 3.6 41.0 1.0 O A:PHE16 3.7 37.5 1.0 CB A:ASP184 3.7 39.6 1.0 OD1 A:ASP184 4.1 40.0 1.0 CB A:ASP15 4.3 38.3 1.0 CG A:GLU17 4.4 38.0 1.0 CA A:HIS179 4.5 41.1 1.0 ND1 A:HIS179 4.5 40.3 1.0 CA A:ALA181 4.7 40.5 1.0 C A:PHE16 4.7 37.3 1.0 C A:HIS179 4.9 41.0 1.0 O A:HIS179 5.0 40.9 1.0

Manganese binding site 2 out of 2 in the Crystal Structure of Cell-Death Related Nuclease 4 (Crn-4) Bound with Mn


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 Cell-Death Related Nuclease 4 (Crn-4) Bound with Mn within 5.0Å range: probe atom residue distance (Å) B Occ B:Mn300 b:43.6 occ:1.00 OD2 B:ASP15 2.0 36.6 1.0 OD2 B:ASP184 2.0 41.3 1.0 OE2 B:GLU17 2.2 34.7 1.0 O B:HOH320 2.7 24.5 1.0 CG B:ASP15 2.8 36.6 1.0 OD1 B:ASP15 3.0 37.8 1.0 CG B:ASP184 3.2 40.2 1.0 CD B:GLU17 3.4 35.3 1.0 O B:PHE16 3.8 36.0 1.0 CB B:ASP184 3.8 39.1 1.0 OE1 B:GLU17 4.1 36.8 1.0 OD1 B:ASP184 4.2 40.0 1.0 CB B:ASP15 4.2 35.3 1.0 CA B:HIS179 4.4 43.4 1.0 CG B:GLU17 4.5 34.6 1.0 CA B:ALA181 4.6 41.2 1.0 ND1 B:HIS179 4.8 46.7 1.0 C B:PHE16 4.8 35.0 1.0 C B:HIS179 4.9 43.0 1.0 N B:HIS179 5.0 43.6 1.0

Y.-Y.Hsiao, A.Nakagawa, Z.Shi, S.Mitani, D.Xue, H.S.Yuan. Crystal Structure of Crn-4: Implications For Domain Function in Apoptotic Dna Degradation Mol.Cell.Biol. V. 29 448 2009.
ISSN: ISSN 0270-7306
PubMed: 18981218
DOI: 10.1128/MCB.01006-08