Iron in PDB 8dfd: Cryoem Structure of the 2:1 Adp-Tetrafluoroaluminate Stabilized Nitrogenase Complex From Azotobacter Vinelandii

All present enzymatic activity of Cryoem Structure of the 2:1 Adp-Tetrafluoroaluminate Stabilized Nitrogenase Complex From Azotobacter Vinelandii:
1.18.6.1;

The structure of Cryoem Structure of the 2:1 Adp-Tetrafluoroaluminate Stabilized Nitrogenase Complex From Azotobacter Vinelandii also contains other interesting chemical elements:

Magnesium	(Mg)	4 atoms
Fluorine	(F)	16 atoms
Molybdenum	(Mo)	2 atoms
Aluminium	(Al)	4 atoms

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 30; Page 4, Binding sites: 31 - 40;

Binding sites:

The binding sites of Iron atom in the Cryoem Structure of the 2:1 Adp-Tetrafluoroaluminate Stabilized Nitrogenase Complex From Azotobacter Vinelandii (pdb code 8dfd). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 40 binding sites of Iron where determined in the Cryoem Structure of the 2:1 Adp-Tetrafluoroaluminate Stabilized Nitrogenase Complex From Azotobacter Vinelandii, PDB code: 8dfd:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Iron binding site 1 out of 40 in the Cryoem Structure of the 2:1 Adp-Tetrafluoroaluminate Stabilized Nitrogenase Complex From Azotobacter Vinelandii


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Cryoem Structure of the 2:1 Adp-Tetrafluoroaluminate Stabilized Nitrogenase Complex From Azotobacter Vinelandii within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe600 b:45.1 occ:1.00 FE1 A:ICS600 0.0 45.1 1.0 S2A A:ICS600 2.3 33.7 1.0 SG A:CYS275 2.3 33.2 1.0 S4A A:ICS600 2.3 28.9 1.0 S1A A:ICS600 2.3 31.8 1.0 FE4 A:ICS600 2.6 48.9 1.0 FE3 A:ICS600 2.7 49.2 1.0 FE2 A:ICS600 2.7 44.9 1.0 CB A:CYS275 3.3 25.4 1.0 CX A:ICS600 3.4 30.1 1.0 OG A:SER278 3.8 37.9 1.0 CB A:LEU358 4.1 23.3 1.0 CB A:SER278 4.1 31.3 1.0 CE2 A:TYR229 4.5 23.1 1.0 CA A:CYS275 4.6 28.8 1.0 CD2 A:LEU358 4.6 26.3 1.0 N A:LEU358 4.8 27.1 1.0 N A:SER278 4.8 32.0 1.0 S3A A:ICS600 4.8 29.7 1.0 S5A A:ICS600 4.8 32.2 1.0 S2B A:ICS600 4.8 28.0 1.0 CG A:LEU358 5.0 31.7 1.0 FE7 A:ICS600 5.0 49.1 1.0

Iron binding site 2 out of 40 in the Cryoem Structure of the 2:1 Adp-Tetrafluoroaluminate Stabilized Nitrogenase Complex From Azotobacter Vinelandii


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Cryoem Structure of the 2:1 Adp-Tetrafluoroaluminate Stabilized Nitrogenase Complex From Azotobacter Vinelandii within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe600 b:44.9 occ:1.00 FE2 A:ICS600 0.0 44.9 1.0 CX A:ICS600 2.0 30.1 1.0 S2B A:ICS600 2.2 28.0 1.0 S2A A:ICS600 2.2 33.7 1.0 S1A A:ICS600 2.3 31.8 1.0 FE6 A:ICS600 2.6 43.5 1.0 FE4 A:ICS600 2.7 48.9 1.0 FE1 A:ICS600 2.7 45.1 1.0 FE3 A:ICS600 2.7 49.2 1.0 FE5 A:ICS600 3.7 46.2 1.0 FE7 A:ICS600 3.7 49.1 1.0 CE1 A:HIS195 3.7 30.6 1.0 S4A A:ICS600 3.9 28.9 1.0 NE2 A:HIS195 3.9 21.2 1.0 CZ A:PHE381 4.0 29.2 1.0 S1B A:ICS600 4.2 28.4 1.0 S3B A:ICS600 4.2 27.2 1.0 CE1 A:PHE381 4.3 30.9 1.0 CG1 A:VAL70 4.5 16.6 1.0 S3A A:ICS600 4.5 29.7 1.0 S5A A:ICS600 4.5 32.2 1.0 SG A:CYS275 4.7 33.2 1.0 ND1 A:HIS195 4.9 27.8 1.0 CG2 A:VAL70 4.9 20.6 1.0 CB A:SER278 4.9 31.3 1.0 N A:GLY357 5.0 33.4 1.0

Iron binding site 3 out of 40 in the Cryoem Structure of the 2:1 Adp-Tetrafluoroaluminate Stabilized Nitrogenase Complex From Azotobacter Vinelandii


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Cryoem Structure of the 2:1 Adp-Tetrafluoroaluminate Stabilized Nitrogenase Complex From Azotobacter Vinelandii within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe600 b:49.2 occ:1.00 FE3 A:ICS600 0.0 49.2 1.0 CX A:ICS600 2.0 30.1 1.0 S5A A:ICS600 2.2 32.2 1.0 S4A A:ICS600 2.3 28.9 1.0 S2A A:ICS600 2.3 33.7 1.0 FE7 A:ICS600 2.6 49.1 1.0 FE4 A:ICS600 2.6 48.9 1.0 FE1 A:ICS600 2.7 45.1 1.0 FE2 A:ICS600 2.7 44.9 1.0 FE6 A:ICS600 3.7 43.5 1.0 FE5 A:ICS600 3.7 46.2 1.0 NH2 A:ARG96 3.8 27.4 1.0 S1A A:ICS600 3.9 31.8 1.0 O A:HOH938 4.0 28.8 1.0 CD2 A:TYR229 4.1 26.9 1.0 S4B A:ICS600 4.2 21.8 1.0 S3B A:ICS600 4.2 27.2 1.0 CE2 A:TYR229 4.3 23.1 1.0 S2B A:ICS600 4.5 28.0 1.0 S3A A:ICS600 4.5 29.7 1.0 SG A:CYS275 4.8 33.2 1.0 NE A:ARG359 4.9 31.2 1.0 CZ A:ARG96 4.9 24.9 1.0 NH2 A:ARG359 4.9 34.8 1.0

Iron binding site 4 out of 40 in the Cryoem Structure of the 2:1 Adp-Tetrafluoroaluminate Stabilized Nitrogenase Complex From Azotobacter Vinelandii


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Cryoem Structure of the 2:1 Adp-Tetrafluoroaluminate Stabilized Nitrogenase Complex From Azotobacter Vinelandii within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe600 b:48.9 occ:1.00 FE4 A:ICS600 0.0 48.9 1.0 CX A:ICS600 2.0 30.1 1.0 S3A A:ICS600 2.2 29.7 1.0 S4A A:ICS600 2.3 28.9 1.0 S1A A:ICS600 2.3 31.8 1.0 FE5 A:ICS600 2.6 46.2 1.0 FE3 A:ICS600 2.6 49.2 1.0 FE1 A:ICS600 2.6 45.1 1.0 FE2 A:ICS600 2.7 44.9 1.0 FE7 A:ICS600 3.7 49.1 1.0 FE6 A:ICS600 3.7 43.5 1.0 S2A A:ICS600 3.8 33.7 1.0 N A:LEU358 3.8 27.1 1.0 N A:GLY357 4.0 33.4 1.0 CB A:LEU358 4.1 23.3 1.0 S4B A:ICS600 4.2 21.8 1.0 S1B A:ICS600 4.3 28.4 1.0 S5A A:ICS600 4.5 32.2 1.0 S2B A:ICS600 4.5 28.0 1.0 CA A:LEU358 4.5 26.5 1.0 CG A:ARG359 4.6 33.5 1.0 C A:GLY357 4.6 32.4 1.0 N A:ARG359 4.6 34.4 1.0 SG A:CYS275 4.6 33.2 1.0 CA A:GLY357 4.7 28.5 1.0 NE A:ARG359 4.8 31.2 1.0 CD A:ARG359 4.9 32.0 1.0 C A:GLY356 5.0 33.8 1.0 CA A:GLY356 5.0 30.0 1.0 CZ A:PHE381 5.0 29.2 1.0

Iron binding site 5 out of 40 in the Cryoem Structure of the 2:1 Adp-Tetrafluoroaluminate Stabilized Nitrogenase Complex From Azotobacter Vinelandii


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of Cryoem Structure of the 2:1 Adp-Tetrafluoroaluminate Stabilized Nitrogenase Complex From Azotobacter Vinelandii within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe600 b:46.2 occ:1.00 FE5 A:ICS600 0.0 46.2 1.0 CX A:ICS600 2.0 30.1 1.0 S4B A:ICS600 2.3 21.8 1.0 S3A A:ICS600 2.3 29.7 1.0 S1B A:ICS600 2.3 28.4 1.0 FE4 A:ICS600 2.6 48.9 1.0 FE6 A:ICS600 2.6 43.5 1.0 FE7 A:ICS600 2.6 49.1 1.0 MO1 A:ICS600 2.7 44.8 1.0 FE2 A:ICS600 3.7 44.9 1.0 FE3 A:ICS600 3.7 49.2 1.0 ND1 A:HIS442 3.7 25.1 1.0 S3B A:ICS600 3.9 27.2 1.0 N A:GLY356 4.0 31.7 1.0 CE1 A:HIS442 4.0 24.6 1.0 CG2 A:ILE355 4.1 28.7 1.0 CA A:GLY356 4.2 30.0 1.0 S1A A:ICS600 4.3 31.8 1.0 S4A A:ICS600 4.3 28.9 1.0 S2B A:ICS600 4.5 28.0 1.0 S5A A:ICS600 4.5 32.2 1.0 O7 A:HCA601 4.6 30.9 1.0 N A:GLY357 4.6 33.4 1.0 CG A:HIS442 4.7 23.2 1.0 CD A:ARG359 4.7 32.0 1.0 O6 A:HCA601 4.7 33.4 1.0 NE A:ARG359 4.9 31.2 1.0 CZ A:PHE381 4.9 29.2 1.0 C A:GLY356 5.0 33.8 1.0

Iron binding site 6 out of 40 in the Cryoem Structure of the 2:1 Adp-Tetrafluoroaluminate Stabilized Nitrogenase Complex From Azotobacter Vinelandii


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 6 of Cryoem Structure of the 2:1 Adp-Tetrafluoroaluminate Stabilized Nitrogenase Complex From Azotobacter Vinelandii within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe600 b:43.5 occ:1.00 FE6 A:ICS600 0.0 43.5 1.0 CX A:ICS600 2.0 30.1 1.0 S2B A:ICS600 2.2 28.0 1.0 S3B A:ICS600 2.2 27.2 1.0 S1B A:ICS600 2.2 28.4 1.0 FE7 A:ICS600 2.6 49.1 1.0 FE2 A:ICS600 2.6 44.9 1.0 FE5 A:ICS600 2.6 46.2 1.0 MO1 A:ICS600 2.7 44.8 1.0 O7 A:HCA601 3.7 30.9 1.0 FE3 A:ICS600 3.7 49.2 1.0 FE4 A:ICS600 3.7 48.9 1.0 S4B A:ICS600 3.8 21.8 1.0 CZ A:PHE381 4.0 29.2 1.0 S2A A:ICS600 4.2 33.7 1.0 O1 A:HCA601 4.2 34.1 1.0 CG2 A:VAL70 4.3 20.6 1.0 S1A A:ICS600 4.3 31.8 1.0 O6 A:HCA601 4.4 33.4 1.0 S5A A:ICS600 4.4 32.2 1.0 S3A A:ICS600 4.5 29.7 1.0 CE2 A:PHE381 4.6 25.0 1.0 ND1 A:HIS442 4.7 25.1 1.0 C3 A:HCA601 4.8 32.1 1.0 C1 A:HCA601 5.0 31.9 1.0 NE A:ARG96 5.0 30.4 1.0 C7 A:HCA601 5.0 28.9 1.0

Iron binding site 7 out of 40 in the Cryoem Structure of the 2:1 Adp-Tetrafluoroaluminate Stabilized Nitrogenase Complex From Azotobacter Vinelandii


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 7 of Cryoem Structure of the 2:1 Adp-Tetrafluoroaluminate Stabilized Nitrogenase Complex From Azotobacter Vinelandii within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe600 b:49.1 occ:1.00 FE7 A:ICS600 0.0 49.1 1.0 CX A:ICS600 2.0 30.1 1.0 S5A A:ICS600 2.2 32.2 1.0 S4B A:ICS600 2.2 21.8 1.0 S3B A:ICS600 2.3 27.2 1.0 FE3 A:ICS600 2.6 49.2 1.0 FE6 A:ICS600 2.6 43.5 1.0 FE5 A:ICS600 2.6 46.2 1.0 MO1 A:ICS600 2.7 44.8 1.0 O A:HOH760 3.6 18.9 1.0 O6 A:HCA601 3.7 33.4 1.0 FE4 A:ICS600 3.7 48.9 1.0 FE2 A:ICS600 3.7 44.9 1.0 S1B A:ICS600 3.8 28.4 1.0 NE A:ARG96 3.9 30.4 1.0 NH2 A:ARG96 3.9 27.4 1.0 S2A A:ICS600 4.3 33.7 1.0 S4A A:ICS600 4.3 28.9 1.0 CZ A:ARG96 4.4 24.9 1.0 S2B A:ICS600 4.4 28.0 1.0 S3A A:ICS600 4.5 29.7 1.0 O7 A:HCA601 4.6 30.9 1.0 CZ A:ARG359 4.6 32.0 1.0 ND1 A:HIS442 4.7 25.1 1.0 NH2 A:ARG359 4.7 34.8 1.0 C7 A:HCA601 4.7 28.9 1.0 NH1 A:ARG359 4.8 31.9 1.0 NE A:ARG359 4.9 31.2 1.0 CD A:ARG96 4.9 25.8 1.0 FE1 A:ICS600 5.0 45.1 1.0

Iron binding site 8 out of 40 in the Cryoem Structure of the 2:1 Adp-Tetrafluoroaluminate Stabilized Nitrogenase Complex From Azotobacter Vinelandii


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 8 of Cryoem Structure of the 2:1 Adp-Tetrafluoroaluminate Stabilized Nitrogenase Complex From Azotobacter Vinelandii within 5.0Å range: probe atom residue distance (Å) B Occ B:Fe600 b:41.8 occ:1.00 FE1 B:CLF600 0.0 41.8 1.0 SG A:CYS154 2.3 21.0 1.0 S2A B:CLF600 2.3 13.2 1.0 S3A B:CLF600 2.3 22.8 1.0 S1 B:CLF600 2.4 19.5 1.0 FE2 B:CLF600 2.5 35.5 1.0 FE4 B:CLF600 2.6 37.5 1.0 FE3 B:CLF600 2.8 31.1 1.0 CB A:CYS154 3.5 13.3 1.0 O B:HOH933 3.5 19.4 1.0 CA A:GLY185 3.8 17.0 1.0 S4A B:CLF600 3.8 12.0 1.0 N A:CYS154 3.9 18.2 1.0 N A:GLY185 3.9 17.3 1.0 SG B:CYS95 4.0 25.0 1.0 CA A:CYS154 4.3 15.7 1.0 FE8 B:CLF600 4.4 41.8 1.0 CB B:SER92 4.5 18.9 1.0 SG A:CYS88 4.6 18.8 1.0 C A:GLY185 4.6 21.6 1.0 FE5 B:CLF600 4.6 34.0 1.0 SG B:CYS153 4.7 28.6 1.0 N A:PHE186 4.8 21.5 1.0 OG B:SER92 4.9 33.1 1.0 FE6 B:CLF600 4.9 43.8 1.0 SG A:CYS62 4.9 23.5 1.0 C A:GLU153 4.9 15.2 1.0

Iron binding site 9 out of 40 in the Cryoem Structure of the 2:1 Adp-Tetrafluoroaluminate Stabilized Nitrogenase Complex From Azotobacter Vinelandii


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 9 of Cryoem Structure of the 2:1 Adp-Tetrafluoroaluminate Stabilized Nitrogenase Complex From Azotobacter Vinelandii within 5.0Å range: probe atom residue distance (Å) B Occ B:Fe600 b:35.5 occ:1.00 FE2 B:CLF600 0.0 35.5 1.0 SG B:CYS95 2.2 25.0 1.0 S4A B:CLF600 2.3 12.0 1.0 S2A B:CLF600 2.3 13.2 1.0 S1 B:CLF600 2.5 19.5 1.0 FE1 B:CLF600 2.5 41.8 1.0 FE4 B:CLF600 2.6 37.5 1.0 FE3 B:CLF600 2.8 31.1 1.0 FE8 B:CLF600 3.0 41.8 1.0 N B:CYS95 3.2 21.3 1.0 CB B:CYS95 3.4 13.4 1.0 CA B:CYS95 3.5 16.8 1.0 S3A B:CLF600 3.8 22.8 1.0 FE5 B:CLF600 3.8 34.0 1.0 C B:GLY94 3.9 17.1 1.0 S4B B:CLF600 4.0 14.0 1.0 O B:HOH933 4.2 19.4 1.0 SG A:CYS88 4.4 18.8 1.0 CA B:GLY94 4.5 7.8 1.0 SG A:CYS154 4.6 21.0 1.0 FE6 B:CLF600 4.6 43.8 1.0 O B:GLY94 4.6 29.2 1.0 CB B:SER92 4.7 18.9 1.0 SG A:CYS62 4.7 23.5 1.0 N B:GLY94 4.9 18.8 1.0 O B:SER92 5.0 26.1 1.0

Iron binding site 10 out of 40 in the Cryoem Structure of the 2:1 Adp-Tetrafluoroaluminate Stabilized Nitrogenase Complex From Azotobacter Vinelandii


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 10 of Cryoem Structure of the 2:1 Adp-Tetrafluoroaluminate Stabilized Nitrogenase Complex From Azotobacter Vinelandii within 5.0Å range: probe atom residue distance (Å) B Occ B:Fe600 b:31.1 occ:1.00 FE3 B:CLF600 0.0 31.1 1.0 S4A B:CLF600 2.3 12.0 1.0 SG A:CYS62 2.3 23.5 1.0 S2A B:CLF600 2.3 13.2 1.0 S3A B:CLF600 2.3 22.8 1.0 FE4 B:CLF600 2.7 37.5 1.0 FE2 B:CLF600 2.8 35.5 1.0 FE1 B:CLF600 2.8 41.8 1.0 CB A:CYS62 3.3 15.2 1.0 CA A:GLY185 3.7 17.0 1.0 CB A:TYR64 3.9 13.8 1.0 S1 B:CLF600 4.2 19.5 1.0 N A:GLY185 4.4 17.3 1.0 CD1 A:TYR64 4.4 13.5 1.0 CA B:GLY94 4.4 7.8 1.0 CG A:TYR64 4.5 17.6 1.0 C B:GLY94 4.6 17.1 1.0 N B:CYS95 4.7 21.3 1.0 CA A:CYS62 4.7 16.9 1.0 SG A:CYS88 4.7 18.8 1.0 O B:HOH958 4.7 19.7 1.0 N A:TYR64 4.8 18.8 1.0 SG A:CYS154 4.8 21.0 1.0 C A:GLY185 4.8 21.6 1.0 CE2 B:TYR98 4.8 17.0 1.0 CA A:TYR64 4.9 15.3 1.0 SG B:CYS95 4.9 25.0 1.0

R.A.Warmack, D.C.Rees. Anaerobic Single Particle Cryoem of Nitrogenase To Be Published.