Iron in PDB 3b2f: Maize Ferredoxin 1

The structure of Maize Ferredoxin 1, PDB code: 3b2f was solved by G.Kurisu, T.Hase, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	32.53 / 1.70
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	39.485, 62.939, 65.060, 90.00, 90.00, 90.00
R / Rfree (%)	22.4 / 28.8

The binding sites of Iron atom in the Maize Ferredoxin 1 (pdb code 3b2f). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 4 binding sites of Iron where determined in the Maize Ferredoxin 1, PDB code: 3b2f:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in the Maize Ferredoxin 1


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Maize Ferredoxin 1 within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe99 b:6.0 occ:1.00 FE1 A:FES99 0.0 6.0 1.0 S2 A:FES99 2.2 7.5 1.0 S1 A:FES99 2.2 6.5 1.0 SG A:CYS47 2.3 6.4 1.0 SG A:CYS77 2.4 5.5 1.0 FE2 A:FES99 2.7 7.9 1.0 CB A:CYS47 3.3 5.2 1.0 CB A:CYS77 3.3 3.7 1.0 N A:CYS77 4.2 3.0 1.0 N A:CYS47 4.2 7.2 1.0 CA A:CYS77 4.3 4.4 1.0 N A:GLY42 4.3 8.4 1.0 CA A:CYS47 4.4 7.8 1.0 N A:ARG40 4.4 11.7 1.0 SG A:CYS39 4.5 8.6 1.0 CB A:LEU75 4.5 4.9 1.0 CA A:ARG40 4.5 12.0 1.0 CA A:GLY42 4.6 7.3 1.0 SG A:CYS44 4.7 9.8 1.0 N A:ALA41 4.8 8.3 1.0 O A:CYS44 4.8 10.5 1.0

Iron binding site 2 out of 4 in the Maize Ferredoxin 1


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Maize Ferredoxin 1 within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe99 b:7.9 occ:1.00 FE2 A:FES99 0.0 7.9 1.0 S1 A:FES99 2.2 6.5 1.0 S2 A:FES99 2.2 7.5 1.0 SG A:CYS44 2.4 9.8 1.0 SG A:CYS39 2.4 8.6 1.0 FE1 A:FES99 2.7 6.0 1.0 CB A:CYS44 3.4 7.4 1.0 CB A:CYS39 3.6 9.4 1.0 N A:CYS44 3.6 8.8 1.0 N A:CYS39 3.6 7.9 1.0 N A:ARG40 3.8 11.7 1.0 CA A:CYS44 3.8 7.7 1.0 CA A:CYS39 3.9 10.8 1.0 C A:CYS44 4.0 8.1 1.0 O A:CYS44 4.1 10.5 1.0 N A:SER43 4.3 6.8 1.0 C A:CYS39 4.3 11.3 1.0 SG A:CYS77 4.5 5.5 1.0 N A:GLY42 4.5 8.4 1.0 N A:SER46 4.5 10.3 1.0 N A:SER38 4.5 8.1 1.0 N A:ALA41 4.5 8.3 1.0 C A:SER43 4.5 9.5 1.0 SG A:CYS47 4.6 6.4 1.0 N A:SER45 4.6 12.6 1.0 C A:SER38 4.6 9.1 1.0 CA A:ARG40 4.7 12.0 1.0 CB A:SER46 4.7 10.9 1.0 CB A:SER38 4.9 12.0 1.0 N A:CYS47 4.9 7.2 1.0 CA A:SER38 5.0 10.8 1.0 CA A:GLY42 5.0 7.3 1.0

Iron binding site 3 out of 4 in the Maize Ferredoxin 1


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Maize Ferredoxin 1 within 5.0Å range: probe atom residue distance (Å) B Occ B:Fe99 b:5.9 occ:1.00 FE1 B:FES99 0.0 5.9 1.0 S1 B:FES99 2.1 5.5 1.0 S2 B:FES99 2.2 5.9 1.0 SG B:CYS47 2.3 6.2 1.0 SG B:CYS77 2.4 5.5 1.0 FE2 B:FES99 2.8 7.5 1.0 CB B:CYS77 3.3 4.1 1.0 CB B:CYS47 3.3 7.8 1.0 N B:CYS77 4.2 4.5 1.0 N B:CYS47 4.2 7.9 1.0 CA B:CYS77 4.3 4.4 1.0 N B:GLY42 4.3 9.0 1.0 CA B:CYS47 4.4 6.4 1.0 SG B:CYS39 4.4 8.4 1.0 N B:ARG40 4.4 10.8 1.0 CA B:ARG40 4.5 11.5 1.0 CB B:LEU75 4.5 3.7 1.0 CA B:GLY42 4.7 6.5 1.0 N B:ALA41 4.7 8.3 1.0 SG B:CYS44 4.7 10.5 1.0 O B:CYS44 4.8 10.1 1.0 C B:ARG40 4.9 11.1 1.0

Iron binding site 4 out of 4 in the Maize Ferredoxin 1


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Maize Ferredoxin 1 within 5.0Å range: probe atom residue distance (Å) B Occ B:Fe99 b:7.5 occ:1.00 FE2 B:FES99 0.0 7.5 1.0 S1 B:FES99 2.2 5.5 1.0 S2 B:FES99 2.2 5.9 1.0 SG B:CYS44 2.3 10.5 1.0 SG B:CYS39 2.4 8.4 1.0 FE1 B:FES99 2.8 5.9 1.0 CB B:CYS44 3.5 8.9 1.0 CB B:CYS39 3.5 8.1 1.0 N B:CYS39 3.6 8.1 1.0 N B:CYS44 3.6 8.5 1.0 N B:ARG40 3.8 10.8 1.0 CA B:CYS44 3.9 7.7 1.0 CA B:CYS39 3.9 10.6 1.0 C B:CYS44 4.0 8.2 1.0 O B:CYS44 4.1 10.1 1.0 N B:SER43 4.3 5.9 1.0 C B:CYS39 4.3 11.0 1.0 N B:SER46 4.5 7.8 1.0 N B:ALA41 4.5 8.3 1.0 N B:GLY42 4.5 9.0 1.0 C B:SER43 4.5 8.0 1.0 N B:SER38 4.5 8.7 1.0 SG B:CYS77 4.5 5.5 1.0 SG B:CYS47 4.6 6.2 1.0 C B:SER38 4.6 8.6 1.0 CA B:ARG40 4.6 11.5 1.0 CB B:SER46 4.7 9.7 1.0 N B:SER45 4.8 13.2 1.0 N B:CYS47 4.9 7.9 1.0 CB B:SER38 4.9 11.9 1.0 CA B:SER38 5.0 10.0 1.0 CA B:SER43 5.0 7.5 1.0

Y.Sakakibara, H.Kimura, A.Iwamura, T.Saitoh, T.Ikegami, G.Kurisu, T.Hase. A New Structural Insight Into Differential Interaction of Cyanobacterial and Plant Ferredoxins with Nitrite Reductase As Revealed By uc(Nmr) and X-Ray Crystallographic Studies J.Biochem. V. 151 483 2012.
ISSN: ISSN 0021-924X
PubMed: 22427434
DOI: 10.1093/JB/MVS028