Iron in PDB 2xdq: Dark Operative Protochlorophyllide Oxidoreductase (Chln-Chlb)2 Complex

The structure of Dark Operative Protochlorophyllide Oxidoreductase (Chln-Chlb)2 Complex, PDB code: 2xdq was solved by M.J.Broecker, S.Schomburg, D.W.Heinz, D.Jahn, W.-D.Schubert, J.Moser, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	103.65 / 2.40
Space group	P 63 2 2
Cell size a, b, c (Å), α, β, γ (°)	192.095, 192.095, 132.504, 90.00, 90.00, 120.00
R / Rfree (%)	20.1 / 25.7

The binding sites of Iron atom in the Dark Operative Protochlorophyllide Oxidoreductase (Chln-Chlb)2 Complex (pdb code 2xdq). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 4 binding sites of Iron where determined in the Dark Operative Protochlorophyllide Oxidoreductase (Chln-Chlb)2 Complex, PDB code: 2xdq:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in the Dark Operative Protochlorophyllide Oxidoreductase (Chln-Chlb)2 Complex


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Dark Operative Protochlorophyllide Oxidoreductase (Chln-Chlb)2 Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe602 b:42.8 occ:1.00 FE1 A:SF4602 0.0 42.8 1.0 S3 A:SF4602 2.1 46.7 1.0 S4 A:SF4602 2.1 50.8 1.0 S2 A:SF4602 2.2 43.5 1.0 SG A:CYS107 2.3 55.3 1.0 FE2 A:SF4602 2.6 45.4 1.0 FE3 A:SF4602 2.6 47.6 1.0 FE4 A:SF4602 2.7 46.7 1.0 CB A:CYS107 3.4 55.2 1.0 S1 A:SF4602 3.7 46.1 1.0 N A:CYS107 3.8 54.1 1.0 N A:GLY138 3.9 60.1 1.0 CA A:CYS107 4.2 55.2 1.0 OD1 B:ASP36 4.3 33.5 1.0 CA A:GLY138 4.4 60.3 1.0 SG A:CYS22 4.5 47.9 1.0 SG A:CYS47 4.6 44.5 1.0 CG B:PRO33 4.7 0.6 1.0 CB B:PRO33 4.7 40.4 1.0 CG2 A:THR106 4.7 50.4 1.0 CB A:ASN137 5.0 60.5 1.0 C A:ASN137 5.0 60.5 1.0

Iron binding site 2 out of 4 in the Dark Operative Protochlorophyllide Oxidoreductase (Chln-Chlb)2 Complex


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Dark Operative Protochlorophyllide Oxidoreductase (Chln-Chlb)2 Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe602 b:45.4 occ:1.00 FE2 A:SF4602 0.0 45.4 1.0 S4 A:SF4602 2.1 50.8 1.0 S3 A:SF4602 2.1 46.7 1.0 S1 A:SF4602 2.2 46.1 1.0 SG A:CYS47 2.3 44.5 1.0 FE1 A:SF4602 2.6 42.8 1.0 FE3 A:SF4602 2.6 47.6 1.0 FE4 A:SF4602 2.6 46.7 1.0 CB A:CYS47 3.4 45.9 1.0 S2 A:SF4602 3.6 43.5 1.0 CA A:CYS47 3.8 46.2 1.0 N A:CYS47 4.0 46.9 1.0 CG2 A:THR106 4.3 50.4 1.0 OD1 B:ASP36 4.5 33.5 1.0 SG A:CYS22 4.6 47.9 1.0 CD1 A:ILE24 4.7 49.7 1.0 OG1 A:THR106 4.7 54.0 1.0 SG A:CYS107 4.8 55.3 1.0 CG2 A:THR46 4.8 49.0 1.0 C A:THR46 4.8 48.0 1.0

Iron binding site 3 out of 4 in the Dark Operative Protochlorophyllide Oxidoreductase (Chln-Chlb)2 Complex


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Dark Operative Protochlorophyllide Oxidoreductase (Chln-Chlb)2 Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe602 b:47.6 occ:1.00 FE3 A:SF4602 0.0 47.6 1.0 S2 A:SF4602 2.0 43.5 1.0 S1 A:SF4602 2.1 46.1 1.0 S4 A:SF4602 2.2 50.8 1.0 SG A:CYS22 2.4 47.9 1.0 FE4 A:SF4602 2.5 46.7 1.0 FE1 A:SF4602 2.6 42.8 1.0 FE2 A:SF4602 2.6 45.4 1.0 CB A:CYS22 3.3 47.3 1.0 S3 A:SF4602 3.5 46.7 1.0 OD1 B:ASP36 4.3 33.5 1.0 N A:GLY138 4.3 60.1 1.0 CD1 A:ILE24 4.4 49.7 1.0 SG A:CYS107 4.7 55.3 1.0 CA A:CYS22 4.7 48.0 1.0 SG A:CYS47 4.7 44.5 1.0 CA A:GLY138 4.7 60.3 1.0 CG2 A:ILE24 4.7 47.4 1.0 CG1 A:ILE24 4.9 47.8 1.0

Iron binding site 4 out of 4 in the Dark Operative Protochlorophyllide Oxidoreductase (Chln-Chlb)2 Complex


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Dark Operative Protochlorophyllide Oxidoreductase (Chln-Chlb)2 Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe602 b:46.7 occ:1.00 FE4 A:SF4602 0.0 46.7 1.0 OD1 B:ASP36 2.0 33.5 1.0 S2 A:SF4602 2.1 43.5 1.0 S1 A:SF4602 2.1 46.1 1.0 S3 A:SF4602 2.1 46.7 1.0 FE3 A:SF4602 2.5 47.6 1.0 FE2 A:SF4602 2.6 45.4 1.0 FE1 A:SF4602 2.7 42.8 1.0 CG B:ASP36 3.2 70.4 1.0 S4 A:SF4602 3.7 50.8 1.0 OD2 B:ASP36 3.8 66.5 1.0 CG2 A:THR46 4.1 49.0 1.0 N B:ASP36 4.4 57.5 1.0 CB B:ASP36 4.5 58.3 1.0 CA B:ASP36 4.5 88.8 1.0 SG A:CYS107 4.5 55.3 1.0 SG A:CYS47 4.7 44.5 1.0 SG A:CYS22 4.7 47.9 1.0 C B:GLY35 4.8 47.9 1.0

M.J.Broecker, S.Schomburg, D.W.Heinz, D.Jahn, W.-D.Schubert, J.Moser. Crystal Structure of the Nitrogenase-Like Dark Operative Protochlorophyllide Oxidoreductase Catalytic Complex (Chln/Chlb)2. J.Biol.Chem. V. 285 27336 2010.
ISSN: ISSN 0021-9258
PubMed: 20558746
DOI: 10.1074/JBC.M110.126698