Iron in PDB 4xk8: Crystal Structure of Plant Photosystem I-Lhci Super-Complex at 2.8 Angstrom Resolution

All present enzymatic activity of Crystal Structure of Plant Photosystem I-Lhci Super-Complex at 2.8 Angstrom Resolution:
1.97.1.12;

The structure of Crystal Structure of Plant Photosystem I-Lhci Super-Complex at 2.8 Angstrom Resolution, PDB code: 4xk8 was solved by M.Suga, X.Qin, T.Kuang, J.R.Shen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	49.15 / 2.80
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	165.624, 192.220, 175.089, 90.00, 91.41, 90.00
R / Rfree (%)	21.1 / 24.8

The structure of Crystal Structure of Plant Photosystem I-Lhci Super-Complex at 2.8 Angstrom Resolution also contains other interesting chemical elements:

Magnesium

(Mg)

309 atoms

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 24;

Binding sites:

The binding sites of Iron atom in the Crystal Structure of Plant Photosystem I-Lhci Super-Complex at 2.8 Angstrom Resolution (pdb code 4xk8). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 24 binding sites of Iron where determined in the Crystal Structure of Plant Photosystem I-Lhci Super-Complex at 2.8 Angstrom Resolution, PDB code: 4xk8:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Iron binding site 1 out of 24 in the Crystal Structure of Plant Photosystem I-Lhci Super-Complex at 2.8 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Crystal Structure of Plant Photosystem I-Lhci Super-Complex at 2.8 Angstrom Resolution within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe853 b:48.6 occ:1.00 FE1 A:SF4853 0.0 48.6 1.0 S4 A:SF4853 2.1 43.5 1.0 S2 A:SF4853 2.1 44.1 1.0 S3 A:SF4853 2.1 43.5 1.0 SG B:CYS568 2.4 60.2 1.0 FE3 A:SF4853 3.0 44.0 1.0 FE2 A:SF4853 3.0 48.8 1.0 FE4 A:SF4853 3.0 51.2 1.0 CB B:CYS568 3.3 50.2 1.0 S1 A:SF4853 3.7 43.9 1.0 CA B:CYS568 3.8 51.2 1.0 CZ3 B:TRP667 4.0 51.9 1.0 CD1 A:ILE727 4.1 44.1 1.0 N B:CYS568 4.1 52.9 1.0 CE3 B:TRP667 4.7 53.8 1.0 SG B:CYS559 4.8 49.7 1.0 CG2 A:ILE727 4.8 43.4 1.0 CG1 A:ILE727 4.8 43.9 1.0 CB B:CYS559 4.8 52.4 1.0 CH2 B:TRP667 4.9 47.9 1.0 C B:THR567 5.0 53.3 1.0

Iron binding site 2 out of 24 in the Crystal Structure of Plant Photosystem I-Lhci Super-Complex at 2.8 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Crystal Structure of Plant Photosystem I-Lhci Super-Complex at 2.8 Angstrom Resolution within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe853 b:48.8 occ:1.00 FE2 A:SF4853 0.0 48.8 1.0 S3 A:SF4853 2.1 43.5 1.0 S1 A:SF4853 2.1 43.9 1.0 S4 A:SF4853 2.1 43.5 1.0 SG A:CYS590 2.4 52.5 1.0 FE1 A:SF4853 3.0 48.6 1.0 FE3 A:SF4853 3.0 44.0 1.0 CB A:CYS590 3.0 52.2 1.0 FE4 A:SF4853 3.0 51.2 1.0 S2 A:SF4853 3.7 44.1 1.0 CA A:CYS590 3.8 52.0 1.0 CE3 B:TRP667 3.9 53.8 1.0 CZ3 B:TRP667 4.1 51.9 1.0 N A:CYS590 4.2 51.3 1.0 CD1 B:ILE702 4.3 54.6 1.0 SG A:CYS581 4.7 52.4 1.0 NH2 A:ARG731 4.8 51.9 1.0 CB A:CYS581 4.8 47.8 1.0 O B:HOH940 4.9 42.6 1.0 CG1 B:ILE702 4.9 54.6 1.0

Iron binding site 3 out of 24 in the Crystal Structure of Plant Photosystem I-Lhci Super-Complex at 2.8 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Crystal Structure of Plant Photosystem I-Lhci Super-Complex at 2.8 Angstrom Resolution within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe853 b:44.0 occ:1.00 FE3 A:SF4853 0.0 44.0 1.0 S2 A:SF4853 2.1 44.1 1.0 S1 A:SF4853 2.1 43.9 1.0 S4 A:SF4853 2.1 43.5 1.0 SG A:CYS581 2.4 52.4 1.0 FE4 A:SF4853 3.0 51.2 1.0 FE1 A:SF4853 3.0 48.6 1.0 FE2 A:SF4853 3.0 48.8 1.0 CB A:CYS581 3.5 47.8 1.0 S3 A:SF4853 3.7 43.5 1.0 CD1 A:ILE727 4.4 44.1 1.0 CD B:PRO562 4.6 50.2 1.0 N A:GLY583 4.6 44.9 1.0 CB B:PRO562 4.6 45.2 1.0 N B:PRO562 4.6 52.6 1.0 CA A:GLY583 4.6 45.0 1.0 CA A:CYS581 4.8 47.7 1.0 CA B:PRO562 4.8 45.2 1.0 C A:GLY583 4.9 52.8 1.0 CG B:PRO562 4.9 45.4 1.0 SG B:CYS568 5.0 60.2 1.0

Iron binding site 4 out of 24 in the Crystal Structure of Plant Photosystem I-Lhci Super-Complex at 2.8 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Crystal Structure of Plant Photosystem I-Lhci Super-Complex at 2.8 Angstrom Resolution within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe853 b:51.2 occ:1.00 FE4 A:SF4853 0.0 51.2 1.0 S1 A:SF4853 2.1 43.9 1.0 S2 A:SF4853 2.1 44.1 1.0 S3 A:SF4853 2.1 43.5 1.0 SG B:CYS559 2.4 49.7 1.0 FE3 A:SF4853 3.0 44.0 1.0 FE1 A:SF4853 3.0 48.6 1.0 FE2 A:SF4853 3.0 48.8 1.0 CB B:CYS559 3.4 52.4 1.0 S4 A:SF4853 3.7 43.5 1.0 CD A:PRO584 4.3 45.0 1.0 CD1 B:ILE702 4.3 54.6 1.0 CB A:PRO584 4.3 44.6 1.0 N A:PRO584 4.3 49.4 1.0 CA A:PRO584 4.6 50.7 1.0 CG A:PRO584 4.7 45.0 1.0 CA B:CYS559 4.8 51.4 1.0 N B:GLY561 4.8 51.0 1.0 CA B:GLY561 4.8 45.3 1.0 C A:GLY583 4.8 52.8 1.0 SG A:CYS590 4.9 52.5 1.0 N B:CYS559 5.0 50.4 1.0

Iron binding site 5 out of 24 in the Crystal Structure of Plant Photosystem I-Lhci Super-Complex at 2.8 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of Crystal Structure of Plant Photosystem I-Lhci Super-Complex at 2.8 Angstrom Resolution within 5.0Å range: probe atom residue distance (Å) B Occ C:Fe101 b:57.6 occ:1.00 FE1 C:SF4101 0.0 57.6 1.0 S2 C:SF4101 2.1 49.7 1.0 S4 C:SF4101 2.1 48.0 1.0 S3 C:SF4101 2.1 47.7 1.0 SG C:CYS51 2.4 61.2 1.0 FE2 C:SF4101 3.0 53.3 1.0 FE4 C:SF4101 3.0 53.4 1.0 FE3 C:SF4101 3.0 52.8 1.0 N C:CYS51 3.4 55.7 1.0 N C:LYS52 3.4 54.3 1.0 CB C:CYS51 3.6 57.1 1.0 S1 C:SF4101 3.7 48.4 1.0 CA C:CYS51 3.9 54.7 1.0 CD C:PRO22 4.0 53.0 1.0 C C:CYS51 4.1 52.9 1.0 N C:ARG53 4.1 56.0 1.0 N C:GLY50 4.2 64.1 1.0 CG2 C:VAL49 4.2 62.8 1.0 C C:GLY50 4.3 57.1 1.0 CA C:LYS52 4.3 54.0 1.0 CA C:GLY50 4.5 60.8 1.0 CG C:PRO22 4.6 50.8 1.0 C C:LYS52 4.8 56.4 1.0 SG C:CYS54 4.9 49.1 1.0 CB C:ARG53 5.0 57.9 1.0

Iron binding site 6 out of 24 in the Crystal Structure of Plant Photosystem I-Lhci Super-Complex at 2.8 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 6 of Crystal Structure of Plant Photosystem I-Lhci Super-Complex at 2.8 Angstrom Resolution within 5.0Å range: probe atom residue distance (Å) B Occ C:Fe101 b:53.3 occ:1.00 FE2 C:SF4101 0.0 53.3 1.0 S3 C:SF4101 2.1 47.7 1.0 S4 C:SF4101 2.1 48.0 1.0 S1 C:SF4101 2.1 48.4 1.0 SG C:CYS21 2.4 80.9 1.0 FE1 C:SF4101 3.0 57.6 1.0 CB C:CYS21 3.0 49.1 1.0 FE3 C:SF4101 3.0 52.8 1.0 FE4 C:SF4101 3.0 53.4 1.0 CA C:CYS21 3.6 48.8 1.0 S2 C:SF4101 3.7 49.7 1.0 CD C:PRO22 4.0 53.0 1.0 CG2 C:VAL25 4.1 68.9 1.0 CB C:VAL25 4.1 69.1 1.0 OG1 C:THR23 4.3 58.0 1.0 C C:CYS21 4.5 54.6 1.0 N C:PRO22 4.5 54.1 1.0 N C:CYS21 4.8 55.5 1.0 CG1 C:VAL25 4.9 69.2 1.0 CD1 C:LEU26 5.0 54.4 1.0 N C:VAL25 5.0 70.4 1.0 SG C:CYS51 5.0 61.2 1.0

Iron binding site 7 out of 24 in the Crystal Structure of Plant Photosystem I-Lhci Super-Complex at 2.8 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 7 of Crystal Structure of Plant Photosystem I-Lhci Super-Complex at 2.8 Angstrom Resolution within 5.0Å range: probe atom residue distance (Å) B Occ C:Fe101 b:52.8 occ:1.00 FE3 C:SF4101 0.0 52.8 1.0 S2 C:SF4101 2.1 49.7 1.0 S4 C:SF4101 2.1 48.0 1.0 S1 C:SF4101 2.1 48.4 1.0 SG C:CYS54 2.4 49.1 1.0 FE1 C:SF4101 3.0 57.6 1.0 FE2 C:SF4101 3.0 53.3 1.0 FE4 C:SF4101 3.0 53.4 1.0 CB C:CYS54 3.3 60.2 1.0 S3 C:SF4101 3.7 47.7 1.0 CG2 C:VAL67 3.9 47.7 1.0 N C:CYS54 4.1 58.0 1.0 CA C:CYS54 4.4 59.5 1.0 CA C:LYS52 4.5 54.0 1.0 N C:LYS52 4.5 54.3 1.0 N C:ARG53 4.7 56.0 1.0 CD1 C:LEU26 4.7 54.4 1.0 C C:LYS52 4.9 56.4 1.0

Iron binding site 8 out of 24 in the Crystal Structure of Plant Photosystem I-Lhci Super-Complex at 2.8 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 8 of Crystal Structure of Plant Photosystem I-Lhci Super-Complex at 2.8 Angstrom Resolution within 5.0Å range: probe atom residue distance (Å) B Occ C:Fe101 b:53.4 occ:1.00 FE4 C:SF4101 0.0 53.4 1.0 S3 C:SF4101 2.1 47.7 1.0 S1 C:SF4101 2.1 48.4 1.0 S2 C:SF4101 2.1 49.7 1.0 SG C:CYS48 2.4 68.6 1.0 FE1 C:SF4101 3.0 57.6 1.0 FE2 C:SF4101 3.0 53.3 1.0 FE3 C:SF4101 3.0 52.8 1.0 CB C:CYS48 3.4 67.2 1.0 N C:GLY50 3.6 64.1 1.0 S4 C:SF4101 3.7 48.0 1.0 CA C:CYS48 3.8 67.4 1.0 N C:VAL49 3.8 64.8 1.0 CA C:GLY50 4.1 60.8 1.0 C C:CYS48 4.2 63.7 1.0 CG2 C:VAL25 4.5 68.9 1.0 CG2 C:VAL5 4.5 48.7 1.0 N C:CYS51 4.6 55.7 1.0 C C:VAL49 4.7 65.4 1.0 CA C:VAL49 4.8 64.6 1.0 C C:GLY50 4.8 57.1 1.0 CB C:VAL25 4.9 69.1 1.0 CG2 C:VAL49 4.9 62.8 1.0 CG1 C:VAL67 4.9 48.3 1.0 CG1 C:VAL25 4.9 69.2 1.0 CG2 C:VAL67 5.0 47.7 1.0

Iron binding site 9 out of 24 in the Crystal Structure of Plant Photosystem I-Lhci Super-Complex at 2.8 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 9 of Crystal Structure of Plant Photosystem I-Lhci Super-Complex at 2.8 Angstrom Resolution within 5.0Å range: probe atom residue distance (Å) B Occ C:Fe102 b:62.6 occ:1.00 FE1 C:SF4102 0.0 62.6 1.0 S3 C:SF4102 2.1 57.5 1.0 S2 C:SF4102 2.1 51.2 1.0 S4 C:SF4102 2.1 53.5 1.0 SG C:CYS58 2.4 58.4 1.0 FE4 C:SF4102 3.0 69.8 1.0 FE3 C:SF4102 3.0 72.5 1.0 FE2 C:SF4102 3.0 65.5 1.0 CB C:CYS58 3.3 58.2 1.0 S1 C:SF4102 3.7 84.5 1.0 CA C:CYS58 3.9 59.1 1.0 CB C:SER64 3.9 58.8 1.0 CD C:PRO59 4.0 65.1 1.0 CG1 C:VAL65 4.1 55.5 1.0 N C:VAL65 4.5 61.7 1.0 N C:SER64 4.5 57.5 1.0 OG1 C:THR60 4.6 64.4 1.0 CG2 C:THR60 4.6 63.7 1.0 OG C:SER64 4.6 58.4 1.0 CA C:SER64 4.6 59.1 1.0 C C:SER64 4.7 62.1 1.0 N C:PRO59 4.7 65.4 1.0 C C:CYS58 4.7 61.9 1.0 CB C:VAL65 4.7 56.8 1.0

Iron binding site 10 out of 24 in the Crystal Structure of Plant Photosystem I-Lhci Super-Complex at 2.8 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 10 of Crystal Structure of Plant Photosystem I-Lhci Super-Complex at 2.8 Angstrom Resolution within 5.0Å range: probe atom residue distance (Å) B Occ C:Fe102 b:65.5 occ:1.00 FE2 C:SF4102 0.0 65.5 1.0 S1 C:SF4102 2.1 84.5 1.0 S4 C:SF4102 2.1 53.5 1.0 S3 C:SF4102 2.1 57.5 1.0 SG C:CYS17 2.4 69.7 1.0 FE3 C:SF4102 3.0 72.5 1.0 FE1 C:SF4102 3.0 62.6 1.0 FE4 C:SF4102 3.0 69.8 1.0 CB C:CYS17 3.1 62.1 1.0 S2 C:SF4102 3.7 51.2 1.0 N C:CYS17 3.8 60.0 1.0 CA C:CYS17 4.1 60.9 1.0 CB C:ALA40 4.1 56.6 1.0 CG1 C:VAL65 4.6 55.5 1.0 N C:GLN16 4.7 67.1 1.0 CB C:VAL65 4.8 56.8 1.0 N C:VAL18 4.9 62.0 1.0 N C:THR15 5.0 68.0 1.0 C C:CYS17 5.0 60.5 1.0

X.Qin, M.Suga, T.Kuang, J.R.Shen. Structural Basis For Energy Transfer Pathways in the Plant Psi-Lhci Supercomplex Science V. 348 989 2015.
ISSN: ESSN 1095-9203
PubMed: 26023133
DOI: 10.1126/SCIENCE.AAB0214