Iron in PDB 5fd1: Crystal Structures of Oxidized and Reduced Azotobacter Vinelandii Ferredoxin at pH 8 and pH 6

The structure of Crystal Structures of Oxidized and Reduced Azotobacter Vinelandii Ferredoxin at pH 8 and pH 6, PDB code: 5fd1 was solved by C.D.Stout, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	8.00 / 1.90
Space group	P 41 21 2
Cell size a, b, c (Å), α, β, γ (°)	55.200, 55.200, 95.200, 90.00, 90.00, 90.00
R / Rfree (%)	21.5 / n/a

The binding sites of Iron atom in the Crystal Structures of Oxidized and Reduced Azotobacter Vinelandii Ferredoxin at pH 8 and pH 6 (pdb code 5fd1). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 7 binding sites of Iron where determined in the Crystal Structures of Oxidized and Reduced Azotobacter Vinelandii Ferredoxin at pH 8 and pH 6, PDB code: 5fd1:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7;

Iron binding site 1 out of 7 in the Crystal Structures of Oxidized and Reduced Azotobacter Vinelandii Ferredoxin at pH 8 and pH 6


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Crystal Structures of Oxidized and Reduced Azotobacter Vinelandii Ferredoxin at pH 8 and pH 6 within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe107 b:13.8 occ:1.00 FE1 A:SF4107 0.0 13.8 1.0 S4 A:SF4107 2.3 14.3 1.0 S2 A:SF4107 2.3 16.0 1.0 SG A:CYS39 2.3 14.1 1.0 S3 A:SF4107 2.3 14.5 1.0 FE3 A:SF4107 2.6 14.6 1.0 FE2 A:SF4107 2.8 17.7 1.0 FE4 A:SF4107 2.8 15.2 1.0 CB A:CYS39 3.4 12.0 1.0 CA A:CYS39 3.8 12.7 1.0 S1 A:SF4107 3.9 14.9 1.0 SG A:CYS24 4.0 13.4 1.0 N A:ILE40 4.0 12.0 1.0 N A:ASP41 4.0 14.0 1.0 C A:CYS39 4.3 13.5 1.0 CB A:PHE2 4.5 13.4 1.0 CG2 A:ILE34 4.5 6.6 1.0 CA A:ASP41 4.6 15.6 1.0 SG A:CYS45 4.7 16.9 1.0 N A:CYS42 4.8 14.2 1.0 CD1 A:PHE2 4.8 14.2 1.0 N A:PHE2 4.9 14.3 1.0 SG A:CYS20 4.9 15.1 1.0 SG A:CYS42 5.0 15.2 1.0 C A:ILE40 5.0 14.6 1.0 CG A:PHE2 5.0 14.1 1.0

Iron binding site 2 out of 7 in the Crystal Structures of Oxidized and Reduced Azotobacter Vinelandii Ferredoxin at pH 8 and pH 6


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Crystal Structures of Oxidized and Reduced Azotobacter Vinelandii Ferredoxin at pH 8 and pH 6 within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe107 b:17.7 occ:1.00 FE2 A:SF4107 0.0 17.7 1.0 S1 A:SF4107 2.3 14.9 1.0 S3 A:SF4107 2.3 14.5 1.0 SG A:CYS42 2.3 15.2 1.0 S4 A:SF4107 2.3 14.3 1.0 FE3 A:SF4107 2.7 14.6 1.0 FE4 A:SF4107 2.7 15.2 1.0 FE1 A:SF4107 2.8 13.8 1.0 CB A:CYS42 3.6 14.1 1.0 N A:CYS42 3.6 14.2 1.0 N A:ALA43 3.9 14.3 1.0 S2 A:SF4107 3.9 16.0 1.0 CA A:CYS42 4.0 13.6 1.0 CD A:PRO21 4.1 13.0 1.0 C A:CYS42 4.2 15.1 1.0 N A:LEU44 4.3 16.7 1.0 N A:ASP41 4.6 14.0 1.0 C A:ASP41 4.6 15.2 1.0 SG A:CYS45 4.7 16.9 1.0 SG A:CYS39 4.7 14.1 1.0 CA A:ALA43 4.7 13.6 1.0 SG A:CYS20 4.7 15.1 1.0 CG A:PRO21 4.7 11.9 1.0 CG1 A:ILE40 4.8 13.6 1.0 CA A:ASP41 4.9 15.6 1.0 C A:ALA43 4.9 14.6 1.0 CB A:LEU44 4.9 15.8 1.0 N A:CYS45 4.9 16.4 1.0

Iron binding site 3 out of 7 in the Crystal Structures of Oxidized and Reduced Azotobacter Vinelandii Ferredoxin at pH 8 and pH 6


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Crystal Structures of Oxidized and Reduced Azotobacter Vinelandii Ferredoxin at pH 8 and pH 6 within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe107 b:14.6 occ:1.00 FE3 A:SF4107 0.0 14.6 1.0 S2 A:SF4107 2.3 16.0 1.0 S4 A:SF4107 2.3 14.3 1.0 S1 A:SF4107 2.3 14.9 1.0 SG A:CYS45 2.3 16.9 1.0 FE1 A:SF4107 2.6 13.8 1.0 FE2 A:SF4107 2.7 17.7 1.0 FE4 A:SF4107 2.7 15.2 1.0 CB A:CYS45 3.4 16.8 1.0 S3 A:SF4107 3.8 14.5 1.0 N A:CYS45 4.1 16.4 1.0 CA A:CYS45 4.3 16.4 1.0 CB A:PHE2 4.4 13.4 1.0 CZ A:PHE25 4.5 12.9 1.0 CE2 A:PHE25 4.5 14.4 1.0 CD1 A:ILE34 4.6 7.2 1.0 SG A:CYS42 4.6 15.2 1.0 SG A:CYS39 4.7 14.1 1.0 CG A:PHE2 4.7 14.1 1.0 N A:LEU44 4.8 16.7 1.0 SG A:CYS20 4.9 15.1 1.0 N A:ALA43 4.9 14.3 1.0

Iron binding site 4 out of 7 in the Crystal Structures of Oxidized and Reduced Azotobacter Vinelandii Ferredoxin at pH 8 and pH 6


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Crystal Structures of Oxidized and Reduced Azotobacter Vinelandii Ferredoxin at pH 8 and pH 6 within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe107 b:15.2 occ:1.00 FE4 A:SF4107 0.0 15.2 1.0 S1 A:SF4107 2.3 14.9 1.0 S3 A:SF4107 2.3 14.5 1.0 S2 A:SF4107 2.3 16.0 1.0 SG A:CYS20 2.3 15.1 1.0 FE2 A:SF4107 2.7 17.7 1.0 FE3 A:SF4107 2.7 14.6 1.0 FE1 A:SF4107 2.8 13.8 1.0 CB A:CYS20 3.4 14.4 1.0 SG A:CYS24 3.6 13.4 1.0 CA A:CYS20 3.7 16.1 1.0 S4 A:SF4107 3.9 14.3 1.0 CE2 A:PHE25 4.2 14.4 1.0 CD A:PRO21 4.3 13.0 1.0 C A:CYS20 4.5 16.1 1.0 CG2 A:VAL22 4.6 14.5 1.0 N A:PRO21 4.7 13.9 1.0 SG A:CYS42 4.7 15.2 1.0 SG A:CYS45 4.8 16.9 1.0 CD2 A:PHE25 4.8 15.0 1.0 N A:CYS20 4.9 18.5 1.0 CZ A:PHE25 4.9 12.9 1.0 SG A:CYS39 4.9 14.1 1.0

Iron binding site 5 out of 7 in the Crystal Structures of Oxidized and Reduced Azotobacter Vinelandii Ferredoxin at pH 8 and pH 6


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of Crystal Structures of Oxidized and Reduced Azotobacter Vinelandii Ferredoxin at pH 8 and pH 6 within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe108 b:16.0 occ:1.00 FE1 A:F3S108 0.0 16.0 1.0 S2 A:F3S108 2.3 14.1 1.0 S3 A:F3S108 2.3 13.6 1.0 S1 A:F3S108 2.3 13.6 1.0 SG A:CYS16 2.3 15.5 1.0 FE4 A:F3S108 2.6 17.1 1.0 FE3 A:F3S108 2.7 14.1 1.0 CB A:CYS16 3.3 14.0 1.0 S4 A:F3S108 3.9 14.6 1.0 N A:THR14 4.0 14.2 1.0 CA A:THR14 4.1 13.9 1.0 N A:CYS16 4.1 14.6 1.0 CD2 A:LEU32 4.2 13.7 1.0 CA A:CYS16 4.3 14.0 1.0 C A:THR14 4.5 13.7 1.0 N A:ASP15 4.6 14.9 1.0 CD1 A:ILE54 4.7 12.3 1.0 SG A:CYS49 4.7 14.8 1.0 SG A:CYS8 4.8 12.1 1.0 N A:TYR13 5.0 15.1 1.0 CB A:LEU32 5.0 13.3 1.0

Iron binding site 6 out of 7 in the Crystal Structures of Oxidized and Reduced Azotobacter Vinelandii Ferredoxin at pH 8 and pH 6


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 6 of Crystal Structures of Oxidized and Reduced Azotobacter Vinelandii Ferredoxin at pH 8 and pH 6 within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe108 b:14.1 occ:1.00 FE3 A:F3S108 0.0 14.1 1.0 S3 A:F3S108 2.3 13.6 1.0 SG A:CYS8 2.3 12.1 1.0 S4 A:F3S108 2.3 14.6 1.0 S1 A:F3S108 2.3 13.6 1.0 FE4 A:F3S108 2.6 17.1 1.0 FE1 A:F3S108 2.7 16.0 1.0 CB A:CYS8 3.2 10.7 1.0 S2 A:F3S108 3.9 14.1 1.0 CA A:CYS8 3.9 11.1 1.0 CA A:LYS12 4.0 12.9 1.0 N A:TYR13 4.3 15.1 1.0 N A:LYS12 4.4 13.0 1.0 CG1 A:VAL4 4.4 7.0 1.0 O A:CYS8 4.6 12.2 1.0 SG A:CYS49 4.7 14.8 1.0 C A:CYS8 4.7 12.3 1.0 C A:LYS12 4.7 14.1 1.0 CB A:LEU32 4.7 13.3 1.0 SG A:CYS16 4.8 15.5 1.0 N A:THR14 4.9 14.2 1.0 N A:LEU32 5.0 12.6 1.0

Iron binding site 7 out of 7 in the Crystal Structures of Oxidized and Reduced Azotobacter Vinelandii Ferredoxin at pH 8 and pH 6


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 7 of Crystal Structures of Oxidized and Reduced Azotobacter Vinelandii Ferredoxin at pH 8 and pH 6 within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe108 b:17.1 occ:1.00 FE4 A:F3S108 0.0 17.1 1.0 S2 A:F3S108 2.3 14.1 1.0 S3 A:F3S108 2.3 13.6 1.0 S4 A:F3S108 2.3 14.6 1.0 SG A:CYS49 2.3 14.8 1.0 FE3 A:F3S108 2.6 14.1 1.0 FE1 A:F3S108 2.6 16.0 1.0 CB A:CYS49 3.3 15.0 1.0 CA A:CYS49 3.8 16.0 1.0 S1 A:F3S108 3.9 13.6 1.0 CD A:PRO50 4.4 14.1 1.0 C A:CYS49 4.4 15.4 1.0 CB A:ALA51 4.5 14.8 1.0 N A:PRO50 4.6 15.7 1.0 SG A:CYS8 4.7 12.1 1.0 SG A:CYS16 4.7 15.5 1.0 N A:ALA51 4.7 15.7 1.0 CB A:ALA53 4.8 9.7 1.0 CD2 A:TYR13 4.8 17.0 1.0 CB A:TYR13 4.9 14.8 1.0 CB A:CYS8 4.9 10.7 1.0 CB A:CYS16 4.9 14.0 1.0 N A:TYR13 5.0 15.1 1.0

C.D.Stout, C.D.Stout. N/A N/A.
ISSN: ISSN 0021-9258
PubMed: 8245025