Magnesium in PDB 8htu: Cryo-Em Structure of Pppsi-L

All present enzymatic activity of Cryo-Em Structure of Pppsi-L:
1.97.1.12;

The structure of Cryo-Em Structure of Pppsi-L also contains other interesting chemical elements:

Iron

(Fe)

12 atoms

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 30; Page 4, Binding sites: 31 - 40; Page 5, Binding sites: 41 - 50; Page 6, Binding sites: 51 - 60; Page 7, Binding sites: 61 - 70; Page 8, Binding sites: 71 - 80; Page 9, Binding sites: 81 - 90; Page 10, Binding sites: 91 - 100; Page 11, Binding sites: 101 - 110; Page 12, Binding sites: 111 - 120; Page 13, Binding sites: 121 - 130; Page 14, Binding sites: 131 - 140; Page 15, Binding sites: 141 - 150; Page 16, Binding sites: 151 - 160; Page 17, Binding sites: 161 - 170; Page 18, Binding sites: 171 - 180; Page 19, Binding sites: 181 - 190; Page 20, Binding sites: 191 - 200; Page 21, Binding sites: 201 - 210; Page 22, Binding sites: 211 - 220; Page 23, Binding sites: 221 - 230; Page 24, Binding sites: 231 - 240; Page 25, Binding sites: 241 - 250; Page 26, Binding sites: 251 - 260; Page 27, Binding sites: 261 - 270;

Binding sites:

The binding sites of Magnesium atom in the Cryo-Em Structure of Pppsi-L (pdb code 8htu). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 270 binding sites of Magnesium where determined in the Cryo-Em Structure of Pppsi-L, PDB code: 8htu:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 270 in the Cryo-Em Structure of Pppsi-L


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 Pppsi-L within 5.0Å range: probe atom residue distance (Å) B Occ U:Mg601 b:70.2 occ:1.00 MG U:CHL601 0.0 70.2 1.0 NA U:CHL601 2.0 70.2 1.0 ND U:CHL601 2.0 70.2 1.0 NB U:CHL601 2.0 70.2 1.0 NC U:CHL601 2.1 70.2 1.0 O U:TYR57 2.2 68.3 1.0 C4A U:CHL601 3.0 70.2 1.0 C4D U:CHL601 3.0 70.2 1.0 C1A U:CHL601 3.0 70.2 1.0 C1B U:CHL601 3.0 70.2 1.0 C1C U:CHL601 3.1 70.2 1.0 C4B U:CHL601 3.1 70.2 1.0 C4C U:CHL601 3.1 70.2 1.0 C1D U:CHL601 3.2 70.2 1.0 CHB U:CHL601 3.4 70.2 1.0 C U:TYR57 3.4 68.3 1.0 CHC U:CHL601 3.4 70.2 1.0 CHA U:CHL601 3.5 70.2 1.0 CHD U:CHL601 3.6 70.2 1.0 C19 U:XAT2622 3.7 71.1 1.0 C3D U:CHL601 4.2 70.2 1.0 C8 U:LHG2630 4.2 67.8 1.0 C3A U:CHL601 4.3 70.2 1.0 N U:LEU58 4.3 71.9 1.0 C2A U:CHL601 4.3 70.2 1.0 CA U:TYR57 4.3 68.3 1.0 CA U:LEU58 4.3 71.9 1.0 C3B U:CHL601 4.4 70.2 1.0 C2C U:CHL601 4.4 70.2 1.0 C2B U:CHL601 4.4 70.2 1.0 C2D U:CHL601 4.4 70.2 1.0 C3C U:CHL601 4.4 70.2 1.0 C10 U:LHG2630 4.7 67.8 1.0 CB U:TYR57 4.8 68.3 1.0 C9 U:LHG2630 4.9 67.8 1.0 C U:LEU58 4.9 71.9 1.0 CBD U:CHL601 4.9 70.2 1.0

Magnesium binding site 2 out of 270 in the Cryo-Em Structure of Pppsi-L


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 Pppsi-L within 5.0Å range: probe atom residue distance (Å) B Occ U:Mg602 b:60.6 occ:1.00 MG U:CLA602 0.0 60.6 1.0 NB U:CLA602 2.0 60.6 1.0 ND U:CLA602 2.0 60.6 1.0 NA U:CLA602 2.1 60.6 1.0 NC U:CLA602 2.1 60.6 1.0 OE1 U:GLU98 2.2 57.2 1.0 C4D U:CLA602 2.9 60.6 1.0 C1B U:CLA602 3.0 60.6 1.0 C4B U:CLA602 3.1 60.6 1.0 C4A U:CLA602 3.1 60.6 1.0 C1C U:CLA602 3.1 60.6 1.0 C1A U:CLA602 3.2 60.6 1.0 C4C U:CLA602 3.2 60.6 1.0 C1D U:CLA602 3.2 60.6 1.0 CD U:GLU98 3.4 57.2 1.0 CHC U:CLA602 3.4 60.6 1.0 CHB U:CLA602 3.4 60.6 1.0 CHA U:CLA602 3.5 60.6 1.0 CHD U:CLA602 3.6 60.6 1.0 C38 U:LUT2621 3.8 59.1 1.0 NE U:ARG218 4.1 60.5 1.0 OE2 U:GLU98 4.2 57.2 1.0 C3D U:CLA602 4.3 60.6 1.0 CG U:GLU98 4.3 57.2 1.0 C2B U:CLA602 4.3 60.6 1.0 C3B U:CLA602 4.3 60.6 1.0 C2C U:CLA602 4.4 60.6 1.0 C2D U:CLA602 4.4 60.6 1.0 C3C U:CLA602 4.4 60.6 1.0 NH2 U:ARG218 4.4 60.5 1.0 C3A U:CLA602 4.4 60.6 1.0 C2A U:CLA602 4.5 60.6 1.0 CZ U:ARG218 4.6 60.5 1.0 CB U:GLU98 4.9 57.2 1.0 CD U:ARG218 4.9 60.5 1.0 CBD U:CLA602 4.9 60.6 1.0 CG U:ARG218 5.0 60.5 1.0

Magnesium binding site 3 out of 270 in the Cryo-Em Structure of Pppsi-L


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 Pppsi-L within 5.0Å range: probe atom residue distance (Å) B Occ U:Mg603 b:57.0 occ:1.00 MG U:CLA603 0.0 57.0 1.0 NB U:CLA603 2.0 57.0 1.0 ND U:CLA603 2.0 57.0 1.0 NC U:CLA603 2.1 57.0 1.0 NA U:CLA603 2.1 57.0 1.0 NE2 U:HIS101 2.2 55.0 1.0 C4D U:CLA603 2.9 57.0 1.0 C1B U:CLA603 3.0 57.0 1.0 C4A U:CLA603 3.1 57.0 1.0 C4B U:CLA603 3.1 57.0 1.0 C1C U:CLA603 3.1 57.0 1.0 C4C U:CLA603 3.1 57.0 1.0 CD2 U:HIS101 3.2 55.0 1.0 C1D U:CLA603 3.2 57.0 1.0 C1A U:CLA603 3.2 57.0 1.0 CE1 U:HIS101 3.2 55.0 1.0 CHB U:CLA603 3.4 57.0 1.0 CHC U:CLA603 3.4 57.0 1.0 CHA U:CLA603 3.5 57.0 1.0 CHD U:CLA603 3.5 57.0 1.0 C9 U:CHL609 3.9 55.4 1.0 C3D U:CLA603 4.3 57.0 1.0 ND1 U:HIS101 4.3 55.0 1.0 C2B U:CLA603 4.3 57.0 1.0 CG U:HIS101 4.3 55.0 1.0 C3B U:CLA603 4.3 57.0 1.0 C2C U:CLA603 4.4 57.0 1.0 C2D U:CLA603 4.4 57.0 1.0 C3C U:CLA603 4.4 57.0 1.0 C3A U:CLA603 4.4 57.0 1.0 C2A U:CLA603 4.5 57.0 1.0 C8 U:CHL609 4.5 55.4 1.0 CBD U:CLA603 4.9 57.0 1.0

Magnesium binding site 4 out of 270 in the Cryo-Em Structure of Pppsi-L


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 Pppsi-L within 5.0Å range: probe atom residue distance (Å) B Occ U:Mg604 b:57.4 occ:1.00 MG U:CLA604 0.0 57.4 1.0 NB U:CLA604 2.0 57.4 1.0 ND U:CLA604 2.0 57.4 1.0 NC U:CLA604 2.1 57.4 1.0 NA U:CLA604 2.1 57.4 1.0 C4D U:CLA604 2.9 57.4 1.0 C1B U:CLA604 3.0 57.4 1.0 C4B U:CLA604 3.1 57.4 1.0 C4A U:CLA604 3.1 57.4 1.0 C1C U:CLA604 3.1 57.4 1.0 C1A U:CLA604 3.2 57.4 1.0 C4C U:CLA604 3.2 57.4 1.0 C1D U:CLA604 3.2 57.4 1.0 CHB U:CLA604 3.4 57.4 1.0 CHC U:CLA604 3.4 57.4 1.0 CHA U:CLA604 3.5 57.4 1.0 CHD U:CLA604 3.5 57.4 1.0 C24 U:NEX2623 3.7 50.8 1.0 O23 U:NEX2623 4.1 50.8 1.0 C3D U:CLA604 4.2 57.4 1.0 O U:GLY111 4.3 60.2 1.0 O1A U:CLA604 4.3 57.4 1.0 C2B U:CLA604 4.3 57.4 1.0 C3B U:CLA604 4.3 57.4 1.0 C2D U:CLA604 4.4 57.4 1.0 C2C U:CLA604 4.4 57.4 1.0 C3C U:CLA604 4.4 57.4 1.0 C3A U:CLA604 4.4 57.4 1.0 C23 U:NEX2623 4.5 50.8 1.0 C2A U:CLA604 4.5 57.4 1.0 CA U:GLY111 4.5 60.2 1.0 C U:GLY111 4.8 60.2 1.0 C25 U:NEX2623 4.9 50.8 1.0 CBD U:CLA604 4.9 57.4 1.0 C22 U:NEX2623 5.0 50.8 1.0

Magnesium binding site 5 out of 270 in the Cryo-Em Structure of Pppsi-L


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 Pppsi-L within 5.0Å range: probe atom residue distance (Å) B Occ U:Mg605 b:59.1 occ:1.00 MG U:CHL605 0.0 59.1 1.0 NA U:CHL605 2.0 59.1 1.0 ND U:CHL605 2.0 59.1 1.0 NB U:CHL605 2.0 59.1 1.0 NC U:CHL605 2.1 59.1 1.0 O U:VAL152 2.3 59.7 1.0 C4A U:CHL605 3.0 59.1 1.0 C1A U:CHL605 3.0 59.1 1.0 C4D U:CHL605 3.0 59.1 1.0 C1B U:CHL605 3.1 59.1 1.0 C1C U:CHL605 3.1 59.1 1.0 C4B U:CHL605 3.1 59.1 1.0 C4C U:CHL605 3.1 59.1 1.0 C1D U:CHL605 3.2 59.1 1.0 CHB U:CHL605 3.4 59.1 1.0 C U:VAL152 3.4 59.7 1.0 CHC U:CHL605 3.4 59.1 1.0 CHA U:CHL605 3.4 59.1 1.0 CHD U:CHL605 3.6 59.1 1.0 O U:HIS153 4.1 60.6 1.0 CA U:VAL152 4.1 59.7 1.0 C3D U:CHL605 4.2 59.1 1.0 C U:HIS153 4.3 60.6 1.0 C2A U:CHL605 4.3 59.1 1.0 C3A U:CHL605 4.3 59.1 1.0 C3B U:CHL605 4.4 59.1 1.0 C2C U:CHL605 4.4 59.1 1.0 C2B U:CHL605 4.4 59.1 1.0 C2D U:CHL605 4.4 59.1 1.0 C3C U:CHL605 4.4 59.1 1.0 N U:HIS153 4.5 60.6 1.0 CG1 U:VAL152 4.5 59.7 1.0 N U:ALA154 4.8 59.4 1.0 CA U:HIS153 4.8 60.6 1.0 O U:LEU151 4.8 62.3 1.0 CB U:HIS153 4.8 60.6 1.0 CBD U:CHL605 4.9 59.1 1.0

Magnesium binding site 6 out of 270 in the Cryo-Em Structure of Pppsi-L


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 Pppsi-L within 5.0Å range: probe atom residue distance (Å) B Occ U:Mg606 b:56.4 occ:1.00 MG U:CHL606 0.0 56.4 1.0 NA U:CHL606 2.0 56.4 1.0 ND U:CHL606 2.0 56.4 1.0 NB U:CHL606 2.0 56.4 1.0 NC U:CHL606 2.1 56.4 1.0 C4A U:CHL606 3.0 56.4 1.0 C1A U:CHL606 3.0 56.4 1.0 C4D U:CHL606 3.0 56.4 1.0 C1B U:CHL606 3.0 56.4 1.0 C1C U:CHL606 3.1 56.4 1.0 C4B U:CHL606 3.1 56.4 1.0 C4C U:CHL606 3.1 56.4 1.0 C1D U:CHL606 3.2 56.4 1.0 CHB U:CHL606 3.4 56.4 1.0 CHC U:CHL606 3.4 56.4 1.0 CHA U:CHL606 3.4 56.4 1.0 CHD U:CHL606 3.6 56.4 1.0 C3D U:CHL606 4.2 56.4 1.0 C3A U:CHL606 4.3 56.4 1.0 C2A U:CHL606 4.3 56.4 1.0 C2B U:CHL606 4.4 56.4 1.0 C2C U:CHL606 4.4 56.4 1.0 C3B U:CHL606 4.4 56.4 1.0 C3C U:CHL606 4.4 56.4 1.0 C38 U:NEX2623 4.4 50.8 1.0 C2D U:CHL606 4.5 56.4 1.0 CG2 U:ILE160 4.6 56.8 1.0 CBA U:CLA604 4.7 57.4 1.0 CBD U:CHL606 4.9 56.4 1.0 CG U:GLN164 4.9 54.5 1.0

Magnesium binding site 7 out of 270 in the Cryo-Em Structure of Pppsi-L


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 Pppsi-L within 5.0Å range: probe atom residue distance (Å) B Occ U:Mg607 b:56.9 occ:1.00 MG U:CHL607 0.0 56.9 1.0 NA U:CHL607 2.0 56.9 1.0 ND U:CHL607 2.0 56.9 1.0 NB U:CHL607 2.0 56.9 1.0 NC U:CHL607 2.1 56.9 1.0 C4A U:CHL607 3.0 56.9 1.0 C4D U:CHL607 3.0 56.9 1.0 C1A U:CHL607 3.0 56.9 1.0 C1B U:CHL607 3.0 56.9 1.0 C1C U:CHL607 3.1 56.9 1.0 C4B U:CHL607 3.1 56.9 1.0 C4C U:CHL607 3.1 56.9 1.0 C1D U:CHL607 3.2 56.9 1.0 CHB U:CHL607 3.4 56.9 1.0 CHC U:CHL607 3.4 56.9 1.0 CHA U:CHL607 3.5 56.9 1.0 CHD U:CHL607 3.6 56.9 1.0 OMC U:CHL606 3.9 56.4 1.0 C3D U:CHL607 4.2 56.9 1.0 C15 W:CHL601 4.3 54.2 1.0 C3A U:CHL607 4.3 56.9 1.0 C2A U:CHL607 4.3 56.9 1.0 C2B U:CHL607 4.4 56.9 1.0 C2C U:CHL607 4.4 56.9 1.0 CMC U:CHL606 4.4 56.4 1.0 C3B U:CHL607 4.4 56.9 1.0 C2D U:CHL607 4.4 56.9 1.0 C3C U:CHL607 4.5 56.9 1.0 C17 W:CHL601 4.5 54.2 1.0 C16 U:LUT2621 4.8 59.1 1.0 C14 W:CHL601 4.8 54.2 1.0 CBD U:CHL607 4.9 56.9 1.0 C38 W:XAT2622 4.9 53.8 1.0

Magnesium binding site 8 out of 270 in the Cryo-Em Structure of Pppsi-L


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 Pppsi-L within 5.0Å range: probe atom residue distance (Å) B Occ U:Mg608 b:50.7 occ:1.00 MG U:CHL608 0.0 50.7 1.0 NA U:CHL608 2.0 50.7 1.0 ND U:CHL608 2.0 50.7 1.0 NB U:CHL608 2.0 50.7 1.0 NC U:CHL608 2.1 50.7 1.0 C4A U:CHL608 3.0 50.7 1.0 C4D U:CHL608 3.0 50.7 1.0 C1A U:CHL608 3.0 50.7 1.0 C1B U:CHL608 3.0 50.7 1.0 C4B U:CHL608 3.1 50.7 1.0 C1C U:CHL608 3.1 50.7 1.0 CZ U:PHE194 3.1 54.5 1.0 C4C U:CHL608 3.1 50.7 1.0 C1D U:CHL608 3.2 50.7 1.0 CHB U:CHL608 3.4 50.7 1.0 CHC U:CHL608 3.4 50.7 1.0 CHA U:CHL608 3.5 50.7 1.0 CE2 U:PHE194 3.5 54.5 1.0 CHD U:CHL608 3.6 50.7 1.0 CE1 U:PHE194 4.0 54.5 1.0 C3D U:CHL608 4.2 50.7 1.0 C3A U:CHL608 4.3 50.7 1.0 C2A U:CHL608 4.3 50.7 1.0 C3B U:CHL608 4.4 50.7 1.0 C2C U:CHL608 4.4 50.7 1.0 C2B U:CHL608 4.4 50.7 1.0 C2D U:CHL608 4.4 50.7 1.0 C3C U:CHL608 4.4 50.7 1.0 CD2 U:PHE194 4.6 54.5 1.0 O U:VAL171 4.7 51.3 1.0 CBA U:CHL608 4.7 50.7 1.0 CBD U:CHL608 4.9 50.7 1.0 CB U:VAL171 5.0 51.3 1.0 CD1 U:PHE194 5.0 54.5 1.0

Magnesium binding site 9 out of 270 in the Cryo-Em Structure of Pppsi-L


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 Pppsi-L within 5.0Å range: probe atom residue distance (Å) B Occ U:Mg609 b:55.4 occ:1.00 MG U:CHL609 0.0 55.4 1.0 NA U:CHL609 2.0 55.4 1.0 ND U:CHL609 2.0 55.4 1.0 NB U:CHL609 2.0 55.4 1.0 NC U:CHL609 2.1 55.4 1.0 OE1 U:GLU172 2.4 52.2 1.0 CD U:GLU172 2.9 52.2 1.0 C4A U:CHL609 3.0 55.4 1.0 C1A U:CHL609 3.0 55.4 1.0 C4D U:CHL609 3.0 55.4 1.0 C1B U:CHL609 3.0 55.4 1.0 C1C U:CHL609 3.1 55.4 1.0 C4B U:CHL609 3.1 55.4 1.0 C4C U:CHL609 3.1 55.4 1.0 C1D U:CHL609 3.2 55.4 1.0 CHB U:CHL609 3.4 55.4 1.0 OE2 U:GLU172 3.4 52.2 1.0 CHC U:CHL609 3.4 55.4 1.0 CHA U:CHL609 3.5 55.4 1.0 CHD U:CHL609 3.6 55.4 1.0 CG U:GLU172 3.9 52.2 1.0 NH2 U:ARG175 4.1 50.9 1.0 C3D U:CHL609 4.2 55.4 1.0 C2A U:CHL609 4.3 55.4 1.0 C3A U:CHL609 4.3 55.4 1.0 C2B U:CHL609 4.4 55.4 1.0 C2C U:CHL609 4.4 55.4 1.0 C3B U:CHL609 4.4 55.4 1.0 CMD U:CLA603 4.4 57.0 1.0 C3C U:CHL609 4.4 55.4 1.0 C2D U:CHL609 4.4 55.4 1.0 O1A U:CHL609 4.5 55.4 1.0 CB U:GLU172 4.7 52.2 1.0 CBD U:CHL609 4.9 55.4 1.0

Magnesium binding site 10 out of 270 in the Cryo-Em Structure of Pppsi-L


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 Pppsi-L within 5.0Å range: probe atom residue distance (Å) B Occ U:Mg610 b:58.8 occ:1.00 MG U:CLA610 0.0 58.8 1.0 NB U:CLA610 2.0 58.8 1.0 ND U:CLA610 2.0 58.8 1.0 NA U:CLA610 2.1 58.8 1.0 NC U:CLA610 2.1 58.8 1.0 OE2 U:GLU213 2.2 59.4 1.0 C4D U:CLA610 2.9 58.8 1.0 C1B U:CLA610 3.0 58.8 1.0 C4A U:CLA610 3.1 58.8 1.0 C4B U:CLA610 3.1 58.8 1.0 C1C U:CLA610 3.1 58.8 1.0 C1A U:CLA610 3.2 58.8 1.0 C4C U:CLA610 3.2 58.8 1.0 C1D U:CLA610 3.2 58.8 1.0 CD U:GLU213 3.2 59.4 1.0 CHB U:CLA610 3.4 58.8 1.0 CHC U:CLA610 3.4 58.8 1.0 CHA U:CLA610 3.5 58.8 1.0 CHD U:CLA610 3.6 58.8 1.0 C38 U:LUT2620 4.0 61.4 1.0 CG U:GLU213 4.0 59.4 1.0 NE U:ARG103 4.0 55.1 1.0 OE1 U:GLU213 4.0 59.4 1.0 NH2 U:ARG103 4.1 55.1 1.0 C3D U:CLA610 4.3 58.8 1.0 C2B U:CLA610 4.3 58.8 1.0 C3B U:CLA610 4.3 58.8 1.0 C2C U:CLA610 4.3 58.8 1.0 C2D U:CLA610 4.4 58.8 1.0 C3C U:CLA610 4.4 58.8 1.0 C3A U:CLA610 4.4 58.8 1.0 C2A U:CLA610 4.5 58.8 1.0 CZ U:ARG103 4.6 55.1 1.0 CB U:GLU213 4.9 59.4 1.0 CG U:ARG103 4.9 55.1 1.0 CBD U:CLA610 4.9 58.8 1.0

H.Sun, H.Shang, X.Pan, M.Li. Structural Insights Into the Assembly and Energy Transfer of the LHCB9-Dependent Photosystem I From Moss Physcomitrium Patens. Nat.Plants 2023.
ISSN: ESSN 2055-0278
PubMed: 37474782
DOI: 10.1038/S41477-023-01463-4