Iron in PDB 8xr6: Cryo-Em Structure of Cryptophyte Photosystem II

All present enzymatic activity of Cryo-Em Structure of Cryptophyte Photosystem II:
1.10.3.9;

The structure of Cryo-Em Structure of Cryptophyte Photosystem II also contains other interesting chemical elements:

Calcium	(Ca)	2 atoms
Chlorine	(Cl)	2 atoms
Manganese	(Mn)	8 atoms
Magnesium	(Mg)	224 atoms

The binding sites of Iron atom in the Cryo-Em Structure of Cryptophyte Photosystem II (pdb code 8xr6). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 6 binding sites of Iron where determined in the Cryo-Em Structure of Cryptophyte Photosystem II, PDB code: 8xr6:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6;

Iron binding site 1 out of 6 in the Cryo-Em Structure of Cryptophyte Photosystem II


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Cryo-Em Structure of Cryptophyte Photosystem II within 5.0Å range: probe atom residue distance (Å) B Occ a:Fe402 b:30.7 occ:1.00 O3 a:BCT403 2.7 31.5 1.0 O2 a:BCT403 2.7 31.5 1.0 NE2 a:HIS272 2.8 22.3 1.0 NE2 d:HIS267 2.8 23.1 1.0 NE2 a:HIS215 2.9 23.4 1.0 NE2 d:HIS213 2.9 19.9 1.0 C a:BCT403 3.1 31.5 1.0 CE1 a:HIS215 3.5 23.4 1.0 CE1 a:HIS272 3.6 22.3 1.0 CD2 d:HIS267 3.7 23.1 1.0 CE1 d:HIS213 3.7 19.9 1.0 CE1 d:HIS267 3.7 23.1 1.0 CD2 a:HIS272 3.8 22.3 1.0 CD2 d:HIS213 3.9 19.9 1.0 CD2 a:HIS215 4.0 23.4 1.0 OH d:TYR243 4.2 24.7 1.0 O1 a:BCT403 4.2 31.5 1.0 OH a:TYR246 4.4 31.9 1.0 CG2 a:VAL219 4.6 26.1 1.0 CG2 d:VAL217 4.7 21.4 1.0 ND1 a:HIS215 4.8 23.4 1.0 ND1 a:HIS272 4.8 22.3 1.0 ND1 d:HIS267 4.8 23.1 1.0 CG d:HIS267 4.8 23.1 1.0 CE1 d:TYR243 4.8 24.7 1.0 ND1 d:HIS213 4.9 19.9 1.0 CZ d:TYR243 4.9 24.7 1.0 CG a:HIS272 4.9 22.3 1.0

Iron binding site 2 out of 6 in the Cryo-Em Structure of Cryptophyte Photosystem II


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Cryo-Em Structure of Cryptophyte Photosystem II within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe402 b:30.7 occ:1.00 O3 A:BCT403 2.7 31.5 1.0 O2 A:BCT403 2.7 31.5 1.0 NE2 A:HIS272 2.8 22.3 1.0 NE2 D:HIS267 2.8 23.1 1.0 NE2 A:HIS215 2.9 23.4 1.0 NE2 D:HIS213 2.9 19.9 1.0 C A:BCT403 3.1 31.5 1.0 CE1 A:HIS215 3.5 23.4 1.0 CE1 A:HIS272 3.6 22.3 1.0 CD2 D:HIS267 3.7 23.1 1.0 CE1 D:HIS213 3.7 19.9 1.0 CE1 D:HIS267 3.7 23.1 1.0 CD2 A:HIS272 3.8 22.3 1.0 CD2 D:HIS213 3.9 19.9 1.0 CD2 A:HIS215 4.0 23.4 1.0 OH D:TYR243 4.2 24.7 1.0 O1 A:BCT403 4.2 31.5 1.0 OH A:TYR246 4.4 31.9 1.0 CG2 A:VAL219 4.6 26.1 1.0 CG2 D:VAL217 4.7 21.4 1.0 ND1 A:HIS215 4.8 23.4 1.0 ND1 A:HIS272 4.8 22.3 1.0 ND1 D:HIS267 4.8 23.1 1.0 CG D:HIS267 4.8 23.1 1.0 CE1 D:TYR243 4.8 24.7 1.0 ND1 D:HIS213 4.9 19.9 1.0 CZ D:TYR243 4.9 24.7 1.0 CG A:HIS272 4.9 22.3 1.0

Iron binding site 3 out of 6 in the Cryo-Em Structure of Cryptophyte Photosystem II


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Cryo-Em Structure of Cryptophyte Photosystem II within 5.0Å range: probe atom residue distance (Å) B Occ F:Fe101 b:56.9 occ:1.00 FE F:HEM101 0.0 56.9 1.0 ND F:HEM101 1.9 56.9 1.0 NA F:HEM101 2.0 56.9 1.0 NC F:HEM101 2.1 56.9 1.0 NB F:HEM101 2.1 56.9 1.0 NE2 F:HIS21 2.7 52.2 1.0 NE2 E:HIS24 2.8 61.6 1.0 C4D F:HEM101 2.9 56.9 1.0 C1D F:HEM101 2.9 56.9 1.0 C1A F:HEM101 2.9 56.9 1.0 C4C F:HEM101 3.0 56.9 1.0 C4A F:HEM101 3.0 56.9 1.0 C1B F:HEM101 3.1 56.9 1.0 C4B F:HEM101 3.1 56.9 1.0 C1C F:HEM101 3.1 56.9 1.0 CHA F:HEM101 3.3 56.9 1.0 CD2 F:HIS21 3.4 52.2 1.0 CHD F:HEM101 3.4 56.9 1.0 CD2 E:HIS24 3.4 61.6 1.0 CHB F:HEM101 3.5 56.9 1.0 CHC F:HEM101 3.5 56.9 1.0 CE1 F:HIS21 3.7 52.2 1.0 CE1 E:HIS24 3.9 61.6 1.0 C3D F:HEM101 4.1 56.9 1.0 C2D F:HEM101 4.1 56.9 1.0 C2A F:HEM101 4.1 56.9 1.0 C3A F:HEM101 4.2 56.9 1.0 C3C F:HEM101 4.2 56.9 1.0 C2C F:HEM101 4.3 56.9 1.0 C2B F:HEM101 4.3 56.9 1.0 C3B F:HEM101 4.3 56.9 1.0 CG F:HIS21 4.5 52.2 1.0 ND1 F:HIS21 4.6 52.2 1.0 CG E:HIS24 4.7 61.6 1.0 ND1 E:HIS24 4.9 61.6 1.0

Iron binding site 4 out of 6 in the Cryo-Em Structure of Cryptophyte Photosystem II


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Cryo-Em Structure of Cryptophyte Photosystem II within 5.0Å range: probe atom residue distance (Å) B Occ V:Fe201 b:48.0 occ:1.00 FE V:HEM201 0.0 48.0 1.0 ND V:HEM201 1.9 48.0 1.0 NA V:HEM201 2.0 48.0 1.0 NC V:HEM201 2.0 48.0 1.0 NB V:HEM201 2.0 48.0 1.0 NE2 V:HIS67 2.8 43.6 1.0 NE2 V:HIS118 2.9 51.4 1.0 C1D V:HEM201 2.9 48.0 1.0 C4D V:HEM201 2.9 48.0 1.0 C1A V:HEM201 3.0 48.0 1.0 C4C V:HEM201 3.0 48.0 1.0 C1B V:HEM201 3.1 48.0 1.0 C4A V:HEM201 3.1 48.0 1.0 C1C V:HEM201 3.1 48.0 1.0 C4B V:HEM201 3.1 48.0 1.0 CD2 V:HIS118 3.1 51.4 1.0 CD2 V:HIS67 3.2 43.6 1.0 CHA V:HEM201 3.3 48.0 1.0 CHD V:HEM201 3.3 48.0 1.0 CHB V:HEM201 3.4 48.0 1.0 CHC V:HEM201 3.5 48.0 1.0 CE1 V:HIS67 4.0 43.6 1.0 C3D V:HEM201 4.1 48.0 1.0 CE1 V:HIS118 4.1 51.4 1.0 C2D V:HEM201 4.1 48.0 1.0 C2A V:HEM201 4.2 48.0 1.0 C3C V:HEM201 4.2 48.0 1.0 C3A V:HEM201 4.2 48.0 1.0 C2C V:HEM201 4.3 48.0 1.0 C2B V:HEM201 4.3 48.0 1.0 C3B V:HEM201 4.3 48.0 1.0 CG V:HIS118 4.5 51.4 1.0 CG V:HIS67 4.5 43.6 1.0 CE2 V:TYR101 4.8 51.0 1.0 ND1 V:HIS67 4.9 43.6 1.0 ND1 V:HIS118 4.9 51.4 1.0

Iron binding site 5 out of 6 in the Cryo-Em Structure of Cryptophyte Photosystem II


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of Cryo-Em Structure of Cryptophyte Photosystem II within 5.0Å range: probe atom residue distance (Å) B Occ f:Fe101 b:56.9 occ:1.00 FE f:HEM101 0.0 56.9 1.0 ND f:HEM101 1.9 56.9 1.0 NA f:HEM101 2.0 56.9 1.0 NC f:HEM101 2.0 56.9 1.0 NB f:HEM101 2.0 56.9 1.0 NE2 e:HIS24 2.8 61.6 1.0 NE2 f:HIS21 2.8 52.2 1.0 C4D f:HEM101 3.0 56.9 1.0 C1D f:HEM101 3.0 56.9 1.0 C1A f:HEM101 3.0 56.9 1.0 C4C f:HEM101 3.0 56.9 1.0 C1B f:HEM101 3.1 56.9 1.0 C1C f:HEM101 3.1 56.9 1.0 C4A f:HEM101 3.1 56.9 1.0 C4B f:HEM101 3.1 56.9 1.0 CHA f:HEM101 3.3 56.9 1.0 CD2 f:HIS21 3.3 52.2 1.0 CD2 e:HIS24 3.4 61.6 1.0 CHD f:HEM101 3.4 56.9 1.0 CHB f:HEM101 3.4 56.9 1.0 CHC f:HEM101 3.5 56.9 1.0 CE1 f:HIS21 3.9 52.2 1.0 CE1 e:HIS24 4.0 61.6 1.0 C3D f:HEM101 4.2 56.9 1.0 C2D f:HEM101 4.2 56.9 1.0 C3C f:HEM101 4.2 56.9 1.0 C2A f:HEM101 4.2 56.9 1.0 C3A f:HEM101 4.3 56.9 1.0 C2C f:HEM101 4.3 56.9 1.0 C2B f:HEM101 4.3 56.9 1.0 C3B f:HEM101 4.3 56.9 1.0 CG f:HIS21 4.5 52.2 1.0 CG e:HIS24 4.7 61.6 1.0 ND1 f:HIS21 4.8 52.2 1.0 CG2 e:ILE23 4.9 62.5 1.0 ND1 e:HIS24 4.9 61.6 1.0 OG1 e:THR27 5.0 58.0 1.0

Iron binding site 6 out of 6 in the Cryo-Em Structure of Cryptophyte Photosystem II


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 6 of Cryo-Em Structure of Cryptophyte Photosystem II within 5.0Å range: probe atom residue distance (Å) B Occ v:Fe201 b:48.0 occ:1.00 FE v:HEM201 0.0 48.0 1.0 ND v:HEM201 1.9 48.0 1.0 NA v:HEM201 2.0 48.0 1.0 NC v:HEM201 2.0 48.0 1.0 NB v:HEM201 2.0 48.0 1.0 NE2 v:HIS67 2.8 43.6 1.0 NE2 v:HIS118 2.9 51.4 1.0 C1D v:HEM201 2.9 48.0 1.0 C4D v:HEM201 2.9 48.0 1.0 C1A v:HEM201 3.0 48.0 1.0 C4C v:HEM201 3.0 48.0 1.0 C1B v:HEM201 3.1 48.0 1.0 C4A v:HEM201 3.1 48.0 1.0 C1C v:HEM201 3.1 48.0 1.0 C4B v:HEM201 3.1 48.0 1.0 CD2 v:HIS118 3.1 51.4 1.0 CD2 v:HIS67 3.2 43.6 1.0 CHA v:HEM201 3.3 48.0 1.0 CHD v:HEM201 3.3 48.0 1.0 CHB v:HEM201 3.4 48.0 1.0 CHC v:HEM201 3.5 48.0 1.0 CE1 v:HIS67 4.0 43.6 1.0 C3D v:HEM201 4.1 48.0 1.0 CE1 v:HIS118 4.1 51.4 1.0 C2D v:HEM201 4.1 48.0 1.0 C2A v:HEM201 4.2 48.0 1.0 C3C v:HEM201 4.2 48.0 1.0 C3A v:HEM201 4.2 48.0 1.0 C2C v:HEM201 4.3 48.0 1.0 C2B v:HEM201 4.3 48.0 1.0 C3B v:HEM201 4.3 48.0 1.0 CG v:HIS118 4.5 51.4 1.0 CG v:HIS67 4.5 43.6 1.0 CE2 v:TYR101 4.8 51.0 1.0 ND1 v:HIS67 4.9 43.6 1.0 ND1 v:HIS118 4.9 51.4 1.0

K.Li, L.S.Zhao, Y.Z.Zhang, L.N.Liu. Cryo-Em Structure of Cryptophyte Photosystem II To Be Published.