Iron in PDB 2c2f: Dps From Deinococcus Radiodurans

The structure of Dps From Deinococcus Radiodurans, PDB code: 2c2f was solved by C.V.Romao, E.Mitchell, S.Mcsweeney, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	64.02 / 1.61
Space group	P 2 3
Cell size a, b, c (Å), α, β, γ (°)	90.616, 90.616, 90.616, 90.00, 90.00, 90.00
R / Rfree (%)	13.1 / 15.3

The structure of Dps From Deinococcus Radiodurans also contains other interesting chemical elements:

Zinc

(Zn)

1 atom

The binding sites of Iron atom in the Dps From Deinococcus Radiodurans (pdb code 2c2f). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 3 binding sites of Iron where determined in the Dps From Deinococcus Radiodurans, PDB code: 2c2f:
Jump to Iron binding site number: 1; 2; 3;

Iron binding site 1 out of 3 in the Dps From Deinococcus Radiodurans


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Dps From Deinococcus Radiodurans within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe1208 b:7.7 occ:1.00 O A:HOH2133 2.1 7.0 1.0 NE2 A:HIS83 2.2 6.3 1.0 O3 A:GOL1213 2.2 8.5 0.5 O2 A:GOL1213 2.2 6.4 0.5 CD2 A:HIS83 3.1 6.2 1.0 CE1 A:HIS83 3.1 8.0 1.0 C2 A:GOL1213 3.2 12.9 0.5 C3 A:GOL1213 3.4 12.1 0.5 C3 A:GOL1213 3.5 12.9 0.5 O2 A:GOL1213 3.7 16.3 0.5 C2 A:GOL1213 3.8 16.5 0.5 C1 A:GOL1213 3.8 15.9 0.5 NZ A:LYS80 3.9 8.8 1.0 NE2 A:HIS95 4.1 7.0 1.0 OD2 A:ASP99 4.1 9.0 1.0 O3 A:GOL1213 4.1 9.7 0.5 CE1 A:HIS95 4.1 7.7 1.0 NE1 A:TRP84 4.2 7.3 1.0 ND1 A:HIS83 4.3 8.0 1.0 CG A:HIS83 4.3 6.7 1.0 CD1 A:TRP84 4.6 7.7 1.0 O1 A:GOL1213 4.6 19.8 0.5 OD1 A:ASP99 4.7 8.8 1.0 CG A:ASP99 4.8 9.8 1.0 O A:HOH2106 4.9 22.8 1.0

Iron binding site 2 out of 3 in the Dps From Deinococcus Radiodurans


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Dps From Deinococcus Radiodurans within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe1209 b:19.4 occ:0.28 OD2 A:ASP93 2.5 18.9 1.0 OD1 A:ASP93 2.5 22.1 1.0 O A:HOH2124 2.8 21.2 1.0 CG A:ASP93 2.8 16.6 1.0 CB A:ASP93 4.3 11.4 1.0 O A:HOH2129 4.7 18.9 1.0 O3 A:GOL1214 4.8 24.2 0.3 N A:ASP93 4.9 9.4 1.0 O2 A:GOL1214 5.0 18.9 0.3 CA A:ASP93 5.0 10.1 1.0

Iron binding site 3 out of 3 in the Dps From Deinococcus Radiodurans


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Dps From Deinococcus Radiodurans within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe1210 b:11.4 occ:0.28 OD1 A:ASP181 2.1 14.9 1.0 O A:HOH2248 2.4 14.8 0.5 O A:HOH2249 3.0 14.0 0.5 CG A:ASP181 3.0 15.1 1.0 OD2 A:ASP181 3.3 19.6 1.0 O A:HOH2253 3.9 35.4 1.0 O A:HOH2250 4.4 22.3 0.5 CB A:ASP181 4.4 9.2 1.0 O A:ASP181 4.7 9.0 1.0 CA A:ASP181 4.9 9.2 1.0

C.V.Romao, E.Mitchell, S.Mcsweeney. The Crystal Structure of Deinococcus Radiodurans Dps Protein (DR2263) Reveals the Presence of A Novel Metal Centre in the N Terminus. J.Biol.Inorg.Chem. V. 11 891 2006.
ISSN: ISSN 0949-8257
PubMed: 16855817
DOI: 10.1007/S00775-006-0142-5