Magnesium in PDB 7dxh: Cryo-Em Structure of Psii Intermediate PSB28-Psii Complex

The structure of Cryo-Em Structure of Psii Intermediate PSB28-Psii Complex also contains other interesting chemical elements:

Chlorine	(Cl)	2 atoms
Iron	(Fe)	2 atoms

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 30; Page 4, Binding sites: 31 - 34;

Binding sites:

The binding sites of Magnesium atom in the Cryo-Em Structure of Psii Intermediate PSB28-Psii Complex (pdb code 7dxh). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 34 binding sites of Magnesium where determined in the Cryo-Em Structure of Psii Intermediate PSB28-Psii Complex, PDB code: 7dxh:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 34 in the Cryo-Em Structure of Psii Intermediate PSB28-Psii Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Cryo-Em Structure of Psii Intermediate PSB28-Psii Complex within 5.0Å range: probe atom residue distance (Å) B Occ a:Mg402 b:21.1 occ:1.00 MG a:CLA402 0.0 21.1 1.0 NB a:CLA402 2.0 20.2 1.0 ND a:CLA402 2.0 20.4 1.0 NC a:CLA402 2.1 22.5 1.0 NA a:CLA402 2.2 21.8 1.0 C4D a:CLA402 2.9 19.6 1.0 C4B a:CLA402 3.0 20.1 1.0 C1B a:CLA402 3.0 21.6 1.0 C1C a:CLA402 3.1 19.6 1.0 C4C a:CLA402 3.1 19.8 1.0 C4A a:CLA402 3.1 22.9 1.0 C1D a:CLA402 3.2 21.1 1.0 C1A a:CLA402 3.2 21.5 1.0 CHB a:CLA402 3.4 20.4 1.0 CHC a:CLA402 3.4 20.3 1.0 CHA a:CLA402 3.5 19.5 1.0 CHD a:CLA402 3.6 18.8 1.0 NE2 a:HIS198 3.6 16.5 1.0 CBB d:CLA406 3.9 22.5 1.0 CD2 a:HIS198 4.0 16.5 1.0 C3D a:CLA402 4.2 19.2 1.0 C3B a:CLA402 4.2 18.3 1.0 C2B a:CLA402 4.3 19.6 1.0 C2C a:CLA402 4.4 20.9 1.0 C3C a:CLA402 4.4 20.0 1.0 C2D a:CLA402 4.4 19.1 1.0 C3A a:CLA402 4.5 21.5 1.0 C2A a:CLA402 4.5 21.5 1.0 CAB d:CLA406 4.9 22.5 1.0 CE1 a:HIS198 4.9 16.5 1.0 CBD a:CLA402 5.0 20.8 1.0 SD a:MET183 5.0 17.6 1.0

Magnesium binding site 2 out of 34 in the Cryo-Em Structure of Psii Intermediate PSB28-Psii Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Cryo-Em Structure of Psii Intermediate PSB28-Psii Complex within 5.0Å range: probe atom residue distance (Å) B Occ a:Mg403 b:23.2 occ:1.00 MG a:CLA403 0.0 23.2 1.0 NB a:CLA403 2.0 22.6 1.0 NC a:CLA403 2.0 24.5 1.0 ND a:CLA403 2.1 25.1 1.0 NA a:CLA403 2.2 25.3 1.0 C4B a:CLA403 3.0 22.0 1.0 C4D a:CLA403 3.0 21.1 1.0 C1B a:CLA403 3.1 21.3 1.0 C1C a:CLA403 3.1 23.4 1.0 C4C a:CLA403 3.1 23.8 1.0 C1A a:CLA403 3.1 23.4 1.0 C4A a:CLA403 3.1 23.3 1.0 C1D a:CLA403 3.2 23.1 1.0 NE2 a:HIS118 3.2 17.2 1.0 CHC a:CLA403 3.4 20.7 1.0 CHB a:CLA403 3.5 23.4 1.0 CHA a:CLA403 3.5 21.1 1.0 CE1 a:HIS118 3.6 17.2 1.0 CHD a:CLA403 3.6 23.1 1.0 CD2 a:HIS118 3.8 17.2 1.0 C3D a:CLA403 4.2 19.3 1.0 C3B a:CLA403 4.3 23.4 1.0 ND1 a:HIS118 4.3 17.2 1.0 C2B a:CLA403 4.3 21.8 1.0 C2C a:CLA403 4.4 25.2 1.0 C3C a:CLA403 4.4 23.4 1.0 C2D a:CLA403 4.4 21.0 1.0 C2A a:CLA403 4.4 25.8 1.0 C3A a:CLA403 4.4 27.0 1.0 CG a:HIS118 4.5 17.2 1.0 CG2 i:VAL12 4.6 30.9 1.0 CG1 i:VAL8 4.8 28.5 1.0 CMA a:CLA403 5.0 26.5 1.0 CBD a:CLA403 5.0 21.5 1.0

Magnesium binding site 3 out of 34 in the Cryo-Em Structure of Psii Intermediate PSB28-Psii Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Cryo-Em Structure of Psii Intermediate PSB28-Psii Complex within 5.0Å range: probe atom residue distance (Å) B Occ a:Mg407 b:22.5 occ:1.00 MG a:CLA407 0.0 22.5 1.0 ND a:CLA407 2.0 20.9 1.0 NB a:CLA407 2.0 21.7 1.0 NC a:CLA407 2.1 24.1 1.0 NA a:CLA407 2.2 22.0 1.0 C4D a:CLA407 2.8 22.6 1.0 C1B a:CLA407 3.0 22.3 1.0 C4B a:CLA407 3.0 26.0 1.0 C1D a:CLA407 3.1 21.8 1.0 C4C a:CLA407 3.1 22.1 1.0 C1A a:CLA407 3.1 21.4 1.0 C1C a:CLA407 3.1 24.2 1.0 C4A a:CLA407 3.2 23.2 1.0 CHA a:CLA407 3.5 22.1 1.0 CHB a:CLA407 3.5 22.8 1.0 CHD a:CLA407 3.5 20.3 1.0 CHC a:CLA407 3.5 25.0 1.0 CD1 d:ILE178 3.9 12.4 1.0 CBB d:PHO403 4.0 23.1 1.0 C3D a:CLA407 4.1 18.8 1.0 C2D a:CLA407 4.3 20.9 1.0 CG2 d:ILE178 4.3 12.4 1.0 C3B a:CLA407 4.3 23.1 1.0 C2B a:CLA407 4.3 23.3 1.0 C3C a:CLA407 4.4 22.3 1.0 C2C a:CLA407 4.4 21.3 1.0 C3A a:CLA407 4.5 23.2 1.0 C2A a:CLA407 4.5 23.9 1.0 C20 d:PHO403 4.8 24.7 1.0 CBD a:CLA407 4.9 23.6 1.0 CBA a:CLA407 4.9 25.7 1.0 CE2 a:PHE206 4.9 10.3 1.0 CG1 d:ILE178 5.0 12.4 1.0

Magnesium binding site 4 out of 34 in the Cryo-Em Structure of Psii Intermediate PSB28-Psii Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Cryo-Em Structure of Psii Intermediate PSB28-Psii Complex within 5.0Å range: probe atom residue distance (Å) B Occ b:Mg601 b:31.9 occ:1.00 MG b:CLA601 0.0 31.9 1.0 ND b:CLA601 2.1 27.9 1.0 NA b:CLA601 2.1 28.9 1.0 NB b:CLA601 2.1 30.5 1.0 NC b:CLA601 2.2 33.3 1.0 C4D b:CLA601 2.9 27.7 1.0 C1A b:CLA601 3.0 28.3 1.0 C4A b:CLA601 3.1 28.1 1.0 C4B b:CLA601 3.1 30.0 1.0 C1B b:CLA601 3.1 27.9 1.0 C1D b:CLA601 3.2 28.1 1.0 C4C b:CLA601 3.2 30.4 1.0 C1C b:CLA601 3.2 32.1 1.0 ND1 b:HIS201 3.3 17.7 1.0 CHA b:CLA601 3.4 28.6 1.0 CE1 b:HIS201 3.5 17.7 1.0 CHB b:CLA601 3.5 27.8 1.0 CHC b:CLA601 3.5 29.2 1.0 CG b:HIS201 3.6 17.7 1.0 CHD b:CLA601 3.7 28.7 1.0 NE2 b:HIS201 3.8 17.7 1.0 CD2 b:HIS201 3.9 17.7 1.0 C3D b:CLA601 4.2 24.7 1.0 CB b:HIS201 4.2 17.7 1.0 CE2 h:PHE41 4.3 19.1 1.0 C2A b:CLA601 4.4 28.9 1.0 CZ h:PHE41 4.4 19.1 1.0 C3A b:CLA601 4.4 27.9 1.0 C2D b:CLA601 4.4 25.2 1.0 C3B b:CLA601 4.4 29.2 1.0 C2B b:CLA601 4.4 30.4 1.0 C3C b:CLA601 4.5 29.4 1.0 C2C b:CLA601 4.5 29.7 1.0 CBD b:CLA601 4.9 26.7 1.0 CMA b:CLA601 4.9 27.4 1.0 CD1 h:ILE45 5.0 16.6 1.0

Magnesium binding site 5 out of 34 in the Cryo-Em Structure of Psii Intermediate PSB28-Psii Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Cryo-Em Structure of Psii Intermediate PSB28-Psii Complex within 5.0Å range: probe atom residue distance (Å) B Occ b:Mg602 b:25.7 occ:1.00 MG b:CLA602 0.0 25.7 1.0 NC b:CLA602 2.0 26.3 1.0 NB b:CLA602 2.0 25.6 1.0 ND b:CLA602 2.1 27.1 1.0 NA b:CLA602 2.2 27.6 1.0 C4D b:CLA602 3.0 24.6 1.0 C4B b:CLA602 3.0 24.0 1.0 C4C b:CLA602 3.0 25.7 1.0 C1C b:CLA602 3.1 25.0 1.0 C1B b:CLA602 3.1 24.0 1.0 C4A b:CLA602 3.2 30.4 1.0 C1A b:CLA602 3.2 25.2 1.0 C1D b:CLA602 3.2 25.1 1.0 CHC b:CLA602 3.4 24.6 1.0 CHB b:CLA602 3.5 27.7 1.0 CHD b:CLA602 3.5 24.7 1.0 CHA b:CLA602 3.6 24.8 1.0 CE1 b:HIS202 3.8 17.4 1.0 NE2 b:HIS202 4.2 17.4 1.0 C3D b:CLA602 4.3 26.7 1.0 ND1 b:HIS202 4.3 17.4 1.0 C3C b:CLA602 4.3 24.9 1.0 C3B b:CLA602 4.3 25.3 1.0 C2C b:CLA602 4.3 26.5 1.0 C2B b:CLA602 4.4 23.5 1.0 C2D b:CLA602 4.4 24.8 1.0 C3A b:CLA602 4.5 26.9 1.0 C2A b:CLA602 4.5 26.1 1.0 C6 b:CLA604 4.7 31.6 1.0 C4 b:CLA604 4.7 29.4 1.0 C5 b:CLA604 4.8 31.2 1.0 NE2 b:HIS201 4.8 17.7 1.0 CBA b:CLA602 4.9 21.8 1.0 C7 b:CLA604 4.9 33.0 1.0 CBD b:CLA602 5.0 25.6 1.0

Magnesium binding site 6 out of 34 in the Cryo-Em Structure of Psii Intermediate PSB28-Psii Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Cryo-Em Structure of Psii Intermediate PSB28-Psii Complex within 5.0Å range: probe atom residue distance (Å) B Occ b:Mg603 b:25.4 occ:1.00 MG b:CLA603 0.0 25.4 1.0 ND b:CLA603 2.0 24.9 1.0 NB b:CLA603 2.1 23.6 1.0 NC b:CLA603 2.1 23.6 1.0 NA b:CLA603 2.3 25.6 1.0 C4D b:CLA603 2.9 24.4 1.0 C1D b:CLA603 3.1 26.9 1.0 C4B b:CLA603 3.1 23.6 1.0 C4C b:CLA603 3.1 26.0 1.0 C1B b:CLA603 3.1 24.9 1.0 C1C b:CLA603 3.2 24.9 1.0 C4A b:CLA603 3.2 24.6 1.0 C1A b:CLA603 3.2 24.8 1.0 CE1 b:HIS455 3.2 13.5 1.0 NE2 b:HIS455 3.4 13.5 1.0 CHB b:CLA603 3.5 25.4 1.0 CHD b:CLA603 3.5 24.8 1.0 CHC b:CLA603 3.5 20.9 1.0 CHA b:CLA603 3.6 23.7 1.0 ND1 b:HIS455 3.6 13.5 1.0 CD2 b:HIS455 3.9 13.5 1.0 CG b:HIS455 4.1 13.5 1.0 C3D b:CLA603 4.2 24.2 1.0 C14 b:CLA611 4.2 29.9 1.0 C2D b:CLA603 4.3 24.4 1.0 C3B b:CLA603 4.4 22.6 1.0 C2B b:CLA603 4.4 22.4 1.0 C3C b:CLA603 4.5 26.1 1.0 C2C b:CLA603 4.5 23.3 1.0 C3A b:CLA603 4.5 26.6 1.0 C2A b:CLA603 4.6 24.2 1.0 C13 b:CLA611 4.9 31.8 1.0 CBD b:CLA603 5.0 25.3 1.0 C15 b:CLA611 5.0 30.6 1.0

Magnesium binding site 7 out of 34 in the Cryo-Em Structure of Psii Intermediate PSB28-Psii Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Cryo-Em Structure of Psii Intermediate PSB28-Psii Complex within 5.0Å range: probe atom residue distance (Å) B Occ b:Mg604 b:24.2 occ:1.00 MG b:CLA604 0.0 24.2 1.0 ND b:CLA604 2.1 23.8 1.0 NC b:CLA604 2.1 24.6 1.0 NB b:CLA604 2.1 24.2 1.0 NA b:CLA604 2.2 23.3 1.0 C4D b:CLA604 3.0 21.4 1.0 C4B b:CLA604 3.1 25.1 1.0 C4C b:CLA604 3.1 24.9 1.0 C1B b:CLA604 3.1 24.8 1.0 C1D b:CLA604 3.1 21.0 1.0 C4A b:CLA604 3.1 25.2 1.0 C1C b:CLA604 3.1 24.4 1.0 C1A b:CLA604 3.2 23.9 1.0 CHB b:CLA604 3.4 22.0 1.0 CHD b:CLA604 3.4 20.1 1.0 CHC b:CLA604 3.5 24.4 1.0 CHA b:CLA604 3.6 22.0 1.0 NE2 b:HIS100 3.9 20.1 1.0 CE1 b:HIS100 4.0 20.1 1.0 C1 b:CLA603 4.1 33.0 1.0 C3D b:CLA604 4.2 21.0 1.0 C2 b:CLA603 4.3 39.2 1.0 C2D b:CLA604 4.4 21.1 1.0 C3B b:CLA604 4.4 23.6 1.0 C3C b:CLA604 4.4 23.8 1.0 C2B b:CLA604 4.4 24.4 1.0 CD2 b:HIS100 4.4 20.1 1.0 C2C b:CLA604 4.4 25.2 1.0 C3A b:CLA604 4.4 22.4 1.0 ND1 b:HIS100 4.5 20.1 1.0 C2A b:CLA604 4.6 26.5 1.0 CG b:HIS100 4.8 20.1 1.0

Magnesium binding site 8 out of 34 in the Cryo-Em Structure of Psii Intermediate PSB28-Psii Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Cryo-Em Structure of Psii Intermediate PSB28-Psii Complex within 5.0Å range: probe atom residue distance (Å) B Occ b:Mg605 b:31.9 occ:1.00 MG b:CLA605 0.0 31.9 1.0 ND b:CLA605 2.1 33.1 1.0 NB b:CLA605 2.1 30.7 1.0 NC b:CLA605 2.2 30.8 1.0 NA b:CLA605 2.3 27.7 1.0 C4D b:CLA605 3.0 34.2 1.0 C1B b:CLA605 3.1 28.6 1.0 C4C b:CLA605 3.1 33.2 1.0 C4B b:CLA605 3.2 29.7 1.0 C4A b:CLA605 3.2 27.8 1.0 C1D b:CLA605 3.2 34.4 1.0 C1C b:CLA605 3.2 31.2 1.0 C1A b:CLA605 3.2 29.6 1.0 ND1 b:HIS157 3.3 19.5 1.0 CHB b:CLA605 3.4 26.6 1.0 CG b:HIS157 3.4 19.5 1.0 CE1 b:HIS157 3.5 19.5 1.0 CHD b:CLA605 3.6 30.9 1.0 CHC b:CLA605 3.6 30.5 1.0 CHA b:CLA605 3.6 32.7 1.0 CD2 b:HIS157 3.7 19.5 1.0 NE2 b:HIS157 3.7 19.5 1.0 CB b:HIS157 4.1 19.5 1.0 C3D b:CLA605 4.3 33.6 1.0 C2B b:CLA605 4.4 28.6 1.0 C3B b:CLA605 4.4 29.6 1.0 C2D b:CLA605 4.5 35.0 1.0 C3C b:CLA605 4.5 31.4 1.0 C3A b:CLA605 4.5 25.8 1.0 C2C b:CLA605 4.5 32.1 1.0 C2A b:CLA605 4.6 26.3 1.0 CD1 b:PHE153 4.7 19.4 1.0

Magnesium binding site 9 out of 34 in the Cryo-Em Structure of Psii Intermediate PSB28-Psii Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Cryo-Em Structure of Psii Intermediate PSB28-Psii Complex within 5.0Å range: probe atom residue distance (Å) B Occ b:Mg606 b:22.4 occ:1.00 MG b:CLA606 0.0 22.4 1.0 ND b:CLA606 2.1 23.4 1.0 NB b:CLA606 2.1 21.5 1.0 NC b:CLA606 2.2 23.8 1.0 NA b:CLA606 2.2 22.2 1.0 C4D b:CLA606 3.0 22.2 1.0 C1B b:CLA606 3.1 22.1 1.0 C4B b:CLA606 3.2 22.2 1.0 C4A b:CLA606 3.2 21.1 1.0 C4C b:CLA606 3.2 23.8 1.0 C1A b:CLA606 3.2 22.2 1.0 C1D b:CLA606 3.2 22.6 1.0 C1C b:CLA606 3.2 23.2 1.0 CHB b:CLA606 3.4 18.2 1.0 CHA b:CLA606 3.6 22.7 1.0 CHD b:CLA606 3.6 23.2 1.0 CHC b:CLA606 3.6 20.0 1.0 O1A b:MGE619 3.9 28.6 1.0 C3A b:MGE619 4.1 28.6 1.0 C3D b:CLA606 4.2 23.4 1.0 C2D b:CLA606 4.4 24.6 1.0 C2B b:CLA606 4.4 23.1 1.0 C3B b:CLA606 4.5 22.5 1.0 C3C b:CLA606 4.5 23.1 1.0 C2C b:CLA606 4.5 22.7 1.0 C3A b:CLA606 4.5 20.8 1.0 C2A b:CLA606 4.5 22.8 1.0 SD b:MET37 4.6 17.6 1.0 C5A b:MGE619 4.7 28.6 1.0 CD2 b:PHE61 4.7 18.5 1.0 C1A b:MGE619 4.8 28.6 1.0 C4A b:MGE619 4.9 28.6 1.0 CB b:PHE61 4.9 18.5 1.0 C2A b:MGE619 5.0 28.6 1.0 CBA b:CLA606 5.0 23.2 1.0 CE b:MET37 5.0 17.6 1.0

Magnesium binding site 10 out of 34 in the Cryo-Em Structure of Psii Intermediate PSB28-Psii Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of Cryo-Em Structure of Psii Intermediate PSB28-Psii Complex within 5.0Å range: probe atom residue distance (Å) B Occ b:Mg607 b:25.9 occ:1.00 MG b:CLA607 0.0 25.9 1.0 NC b:CLA607 2.0 26.1 1.0 ND b:CLA607 2.0 24.6 1.0 NB b:CLA607 2.1 26.2 1.0 NA b:CLA607 2.2 28.1 1.0 C4D b:CLA607 2.9 24.1 1.0 C4B b:CLA607 3.0 24.4 1.0 C1C b:CLA607 3.0 25.1 1.0 C4C b:CLA607 3.1 23.4 1.0 C1B b:CLA607 3.1 27.9 1.0 C1D b:CLA607 3.1 23.3 1.0 C4A b:CLA607 3.2 25.3 1.0 C1A b:CLA607 3.2 24.7 1.0 NE2 b:HIS466 3.2 9.5 1.0 CHC b:CLA607 3.4 26.0 1.0 CHB b:CLA607 3.5 25.4 1.0 CD2 b:HIS466 3.5 9.5 1.0 CHD b:CLA607 3.5 23.6 1.0 CHA b:CLA607 3.6 25.3 1.0 C3D b:CLA607 4.2 23.9 1.0 CE1 b:HIS466 4.2 9.5 1.0 C2D b:CLA607 4.3 25.3 1.0 C3C b:CLA607 4.3 24.5 1.0 C2C b:CLA607 4.4 25.6 1.0 C3B b:CLA607 4.4 24.3 1.0 C4 b:CLA607 4.4 30.5 1.0 C1 b:CLA607 4.4 30.6 1.0 C2B b:CLA607 4.4 25.8 1.0 O2A b:CLA607 4.4 31.1 1.0 C3A b:CLA607 4.5 26.3 1.0 C2A b:CLA607 4.6 27.4 1.0 CG b:HIS466 4.7 9.5 1.0 CGA b:CLA607 4.7 28.0 1.0 O1A b:CLA607 4.9 32.9 1.0 CBD b:CLA607 5.0 28.5 1.0 ND1 b:HIS466 5.0 9.5 1.0

S.F.Sui, J.R.Shen, G.Y.Han, Y.N.Xiao, G.Q.Huang. Cryo-Em Structure of Psii Intermediate PSB28-Psii Complex at 3.14 Angstroms Resolution. To Be Published.