Magnesium in PDB 7vnm: Rba Sphaeroides Pufy-Ko Rc-LH1 Monomer

The structure of Rba Sphaeroides Pufy-Ko Rc-LH1 Monomer also contains other interesting chemical elements:

Iron

(Fe)

1 atom

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

Binding sites:

The binding sites of Magnesium atom in the Rba Sphaeroides Pufy-Ko Rc-LH1 Monomer (pdb code 7vnm). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 30 binding sites of Magnesium where determined in the Rba Sphaeroides Pufy-Ko Rc-LH1 Monomer, PDB code: 7vnm:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 30 in the Rba Sphaeroides Pufy-Ko Rc-LH1 Monomer


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Rba Sphaeroides Pufy-Ko Rc-LH1 Monomer within 5.0Å range: probe atom residue distance (Å) B Occ L:Mg301 b:9.6 occ:1.00 MG L:BCL301 0.0 9.6 1.0 ND L:BCL301 2.0 9.6 1.0 NB L:BCL301 2.1 9.6 1.0 NC L:BCL301 2.1 9.6 1.0 NA L:BCL301 2.2 9.6 1.0 NE2 L:HIS173 2.7 3.4 1.0 C4D L:BCL301 3.0 9.6 1.0 C1B L:BCL301 3.1 9.6 1.0 C4B L:BCL301 3.1 9.6 1.0 C1C L:BCL301 3.1 9.6 1.0 C4A L:BCL301 3.1 9.6 1.0 C1D L:BCL301 3.1 9.6 1.0 C4C L:BCL301 3.2 9.6 1.0 C1A L:BCL301 3.2 9.6 1.0 CHC L:BCL301 3.4 9.6 1.0 CHB L:BCL301 3.4 9.6 1.0 CHA L:BCL301 3.5 9.6 1.0 CHD L:BCL301 3.5 9.6 1.0 CD2 L:HIS173 3.6 3.4 1.0 CE1 L:HIS173 3.6 3.4 1.0 CBB M:BCL403 3.6 19.9 1.0 CAB M:BCL403 3.7 19.9 1.0 OBB M:BCL403 3.8 19.9 1.0 C3D L:BCL301 4.2 9.6 1.0 C2B L:BCL301 4.3 9.6 1.0 C2D L:BCL301 4.3 9.6 1.0 C3B L:BCL301 4.3 9.6 1.0 C3A L:BCL301 4.4 9.6 1.0 C2C L:BCL301 4.4 9.6 1.0 C3C L:BCL301 4.4 9.6 1.0 C3B M:BCL403 4.5 19.9 1.0 C2A L:BCL301 4.5 9.6 1.0 ND1 L:HIS173 4.7 3.4 1.0 CG L:HIS173 4.7 3.4 1.0 CD2 L:PHE167 4.8 6.3 1.0 CMA L:BCL301 4.9 9.6 1.0 CBD L:BCL301 4.9 9.6 1.0

Magnesium binding site 2 out of 30 in the Rba Sphaeroides Pufy-Ko Rc-LH1 Monomer


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Rba Sphaeroides Pufy-Ko Rc-LH1 Monomer within 5.0Å range: probe atom residue distance (Å) B Occ L:Mg305 b:5.5 occ:1.00 MG L:BCL305 0.0 5.5 1.0 ND L:BCL305 2.0 5.5 1.0 NB L:BCL305 2.1 5.5 1.0 NC L:BCL305 2.1 5.5 1.0 NA L:BCL305 2.2 5.5 1.0 NE2 M:HIS182 2.8 2.4 1.0 C4D L:BCL305 3.0 5.5 1.0 C1B L:BCL305 3.1 5.5 1.0 C4B L:BCL305 3.1 5.5 1.0 C1C L:BCL305 3.1 5.5 1.0 C1D L:BCL305 3.1 5.5 1.0 C4A L:BCL305 3.1 5.5 1.0 C4C L:BCL305 3.1 5.5 1.0 C1A L:BCL305 3.2 5.5 1.0 CD2 M:HIS182 3.3 2.4 1.0 CHB L:BCL305 3.4 5.5 1.0 CHC L:BCL305 3.4 5.5 1.0 CHA L:BCL305 3.5 5.5 1.0 CHD L:BCL305 3.5 5.5 1.0 CE1 M:HIS182 4.0 2.4 1.0 C3D L:BCL305 4.2 5.5 1.0 C2B L:BCL305 4.3 5.5 1.0 C2D L:BCL305 4.3 5.5 1.0 C3B L:BCL305 4.3 5.5 1.0 C2C L:BCL305 4.4 5.5 1.0 C3C L:BCL305 4.4 5.5 1.0 C3A L:BCL305 4.4 5.5 1.0 C2A L:BCL305 4.5 5.5 1.0 CBB L:BPH306 4.5 5.9 1.0 CG M:HIS182 4.6 2.4 1.0 ND1 M:HIS182 4.9 2.4 1.0 CBD L:BCL305 4.9 5.5 1.0

Magnesium binding site 3 out of 30 in the Rba Sphaeroides Pufy-Ko Rc-LH1 Monomer


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Rba Sphaeroides Pufy-Ko Rc-LH1 Monomer within 5.0Å range: probe atom residue distance (Å) B Occ M:Mg401 b:19.9 occ:1.00 MG M:BCL401 0.0 19.9 1.0 ND M:BCL401 2.0 19.9 1.0 NB M:BCL401 2.1 19.9 1.0 NC M:BCL401 2.1 19.9 1.0 NA M:BCL401 2.2 19.9 1.0 NE2 L:HIS153 2.8 4.8 1.0 C4D M:BCL401 3.0 19.9 1.0 C4B M:BCL401 3.1 19.9 1.0 C1B M:BCL401 3.1 19.9 1.0 C1C M:BCL401 3.1 19.9 1.0 C4A M:BCL401 3.1 19.9 1.0 C1D M:BCL401 3.1 19.9 1.0 C4C M:BCL401 3.1 19.9 1.0 C1A M:BCL401 3.2 19.9 1.0 CD2 L:HIS153 3.4 4.8 1.0 CHC M:BCL401 3.4 19.9 1.0 CHB M:BCL401 3.4 19.9 1.0 CHA M:BCL401 3.4 19.9 1.0 CHD M:BCL401 3.5 19.9 1.0 CE1 L:HIS153 3.9 4.8 1.0 C3D M:BCL401 4.2 19.9 1.0 C2D M:BCL401 4.3 19.9 1.0 C2B M:BCL401 4.3 19.9 1.0 C3B M:BCL401 4.3 19.9 1.0 CBB L:BPH302 4.3 19.9 1.0 C2C M:BCL401 4.4 19.9 1.0 C3A M:BCL401 4.4 19.9 1.0 C3C M:BCL401 4.4 19.9 1.0 C2A M:BCL401 4.5 19.9 1.0 CG L:HIS153 4.6 4.8 1.0 CE2 M:TYR210 4.7 19.9 1.0 ND1 L:HIS153 4.9 4.8 1.0 CBD M:BCL401 4.9 19.9 1.0 CMC M:BCL401 5.0 19.9 1.0

Magnesium binding site 4 out of 30 in the Rba Sphaeroides Pufy-Ko Rc-LH1 Monomer


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Rba Sphaeroides Pufy-Ko Rc-LH1 Monomer within 5.0Å range: probe atom residue distance (Å) B Occ M:Mg403 b:19.9 occ:1.00 MG M:BCL403 0.0 19.9 1.0 ND M:BCL403 2.0 19.9 1.0 NB M:BCL403 2.1 19.9 1.0 NC M:BCL403 2.1 19.9 1.0 NA M:BCL403 2.2 19.9 1.0 CE1 M:HIS202 2.7 5.0 1.0 C4D M:BCL403 3.0 19.9 1.0 C4B M:BCL403 3.1 19.9 1.0 C1B M:BCL403 3.1 19.9 1.0 C1C M:BCL403 3.1 19.9 1.0 C4A M:BCL403 3.1 19.9 1.0 C1D M:BCL403 3.1 19.9 1.0 C4C M:BCL403 3.2 19.9 1.0 C1A M:BCL403 3.2 19.9 1.0 CHC M:BCL403 3.4 19.9 1.0 NE2 M:HIS202 3.4 5.0 1.0 CHB M:BCL403 3.4 19.9 1.0 CBB L:BCL301 3.4 9.6 1.0 CHA M:BCL403 3.4 19.9 1.0 CHD M:BCL403 3.5 19.9 1.0 CAB L:BCL301 3.7 9.6 1.0 ND1 M:HIS202 3.8 5.0 1.0 OBB L:BCL301 3.9 9.6 1.0 C3D M:BCL403 4.2 19.9 1.0 C2B M:BCL403 4.3 19.9 1.0 C2D M:BCL403 4.3 19.9 1.0 C3B M:BCL403 4.3 19.9 1.0 C2C M:BCL403 4.3 19.9 1.0 C3B L:BCL301 4.4 9.6 1.0 C3C M:BCL403 4.4 19.9 1.0 C3A M:BCL403 4.5 19.9 1.0 C2A M:BCL403 4.5 19.9 1.0 CD2 M:HIS202 4.7 5.0 1.0 CD1 M:ILE206 4.8 8.3 1.0 CBD M:BCL403 4.9 19.9 1.0 CG M:HIS202 4.9 5.0 1.0 CMC M:BCL403 4.9 19.9 1.0

Magnesium binding site 5 out of 30 in the Rba Sphaeroides Pufy-Ko Rc-LH1 Monomer


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Rba Sphaeroides Pufy-Ko Rc-LH1 Monomer within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg602 b:9.1 occ:1.00 MG A:BCL602 0.0 9.1 1.0 ND A:BCL602 2.0 9.1 1.0 NB A:BCL602 2.1 9.1 1.0 NC A:BCL602 2.1 9.1 1.0 NA A:BCL602 2.2 9.1 1.0 C4D A:BCL602 3.0 9.1 1.0 NE2 A:HIS32 3.1 8.1 1.0 C4B A:BCL602 3.1 9.1 1.0 C1B A:BCL602 3.1 9.1 1.0 C1C A:BCL602 3.1 9.1 1.0 C1D A:BCL602 3.1 9.1 1.0 C4A A:BCL602 3.1 9.1 1.0 C4C A:BCL602 3.2 9.1 1.0 C1A A:BCL602 3.2 9.1 1.0 CHC A:BCL602 3.4 9.1 1.0 CHB A:BCL602 3.4 9.1 1.0 CHA A:BCL602 3.4 9.1 1.0 CHD A:BCL602 3.5 9.1 1.0 CE1 A:HIS32 4.0 8.1 1.0 CBB 9:BCL103 4.0 11.5 1.0 CD2 A:HIS32 4.0 8.1 1.0 C18 0:SPO101 4.2 15.9 1.0 C3D A:BCL602 4.2 9.1 1.0 CMB 9:BCL103 4.3 11.5 1.0 C2B A:BCL602 4.3 9.1 1.0 C2D A:BCL602 4.3 9.1 1.0 C3B A:BCL602 4.3 9.1 1.0 C2C A:BCL602 4.4 9.1 1.0 C3C A:BCL602 4.4 9.1 1.0 C3A A:BCL602 4.4 9.1 1.0 C2A A:BCL602 4.5 9.1 1.0 C2B 9:BCL103 4.8 11.5 1.0 C20 0:SPO101 4.8 15.9 1.0 CBD A:BCL602 4.9 9.1 1.0 CMD A:BCL605 5.0 10.9 1.0 CAB 9:BCL103 5.0 11.5 1.0

Magnesium binding site 6 out of 30 in the Rba Sphaeroides Pufy-Ko Rc-LH1 Monomer


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Rba Sphaeroides Pufy-Ko Rc-LH1 Monomer within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg605 b:10.9 occ:1.00 MG A:BCL605 0.0 10.9 1.0 ND A:BCL605 2.0 10.9 1.0 NB A:BCL605 2.1 10.9 1.0 NC A:BCL605 2.1 10.9 1.0 NA A:BCL605 2.2 10.9 1.0 NE2 B:HIS39 2.7 10.3 1.0 C4D A:BCL605 3.0 10.9 1.0 C4B A:BCL605 3.1 10.9 1.0 C1B A:BCL605 3.1 10.9 1.0 C1C A:BCL605 3.1 10.9 1.0 C4A A:BCL605 3.1 10.9 1.0 C1D A:BCL605 3.1 10.9 1.0 C4C A:BCL605 3.2 10.9 1.0 C1A A:BCL605 3.2 10.9 1.0 CD2 B:HIS39 3.2 10.3 1.0 CHC A:BCL605 3.4 10.9 1.0 CHB A:BCL605 3.4 10.9 1.0 CHA A:BCL605 3.4 10.9 1.0 CHD A:BCL605 3.5 10.9 1.0 CE1 B:HIS39 3.9 10.3 1.0 CMB D:BCL101 4.1 10.4 1.0 C3D A:BCL605 4.2 10.9 1.0 C2B A:BCL605 4.3 10.9 1.0 C3B A:BCL605 4.3 10.9 1.0 C2D A:BCL605 4.3 10.9 1.0 CBB D:BCL101 4.4 10.4 1.0 C2C A:BCL605 4.4 10.9 1.0 C3A A:BCL605 4.4 10.9 1.0 C2A A:BCL605 4.5 10.9 1.0 C3C A:BCL605 4.5 10.9 1.0 CG B:HIS39 4.6 10.3 1.0 C2B D:BCL101 4.7 10.4 1.0 CAB D:BCL101 4.8 10.4 1.0 ND1 B:HIS39 4.9 10.3 1.0 CBD A:BCL605 4.9 10.9 1.0 CD1 A:ILE31 4.9 9.2 1.0 CMD A:BCL602 5.0 9.1 1.0 C3B D:BCL101 5.0 10.4 1.0

Magnesium binding site 7 out of 30 in the Rba Sphaeroides Pufy-Ko Rc-LH1 Monomer


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Rba Sphaeroides Pufy-Ko Rc-LH1 Monomer within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg101 b:10.4 occ:1.00 MG D:BCL101 0.0 10.4 1.0 ND D:BCL101 2.0 10.4 1.0 NB D:BCL101 2.1 10.4 1.0 NC D:BCL101 2.1 10.4 1.0 NA D:BCL101 2.2 10.4 1.0 C4D D:BCL101 3.0 10.4 1.0 NE2 D:HIS32 3.1 7.9 1.0 C1B D:BCL101 3.1 10.4 1.0 C4B D:BCL101 3.1 10.4 1.0 C1C D:BCL101 3.1 10.4 1.0 C1D D:BCL101 3.1 10.4 1.0 C4A D:BCL101 3.1 10.4 1.0 C4C D:BCL101 3.2 10.4 1.0 C1A D:BCL101 3.2 10.4 1.0 CHC D:BCL101 3.4 10.4 1.0 CHB D:BCL101 3.4 10.4 1.0 CHA D:BCL101 3.4 10.4 1.0 CHD D:BCL101 3.5 10.4 1.0 CBB A:BCL605 3.7 10.9 1.0 C18 D:SPO103 3.7 18.1 1.0 CE1 D:HIS32 4.0 7.9 1.0 CD2 D:HIS32 4.0 7.9 1.0 CMB A:BCL605 4.2 10.9 1.0 C3D D:BCL101 4.2 10.4 1.0 C2B D:BCL101 4.3 10.4 1.0 C2D D:BCL101 4.3 10.4 1.0 C3B D:BCL101 4.3 10.4 1.0 C2C D:BCL101 4.4 10.4 1.0 C3C D:BCL101 4.4 10.4 1.0 C3A D:BCL101 4.4 10.4 1.0 C17 D:SPO103 4.5 18.1 1.0 C2A D:BCL101 4.5 10.4 1.0 C2B A:BCL605 4.7 10.9 1.0 CAB A:BCL605 4.8 10.9 1.0 C20 D:SPO103 4.9 18.1 1.0 C3B A:BCL605 4.9 10.9 1.0 CBD D:BCL101 4.9 10.4 1.0

Magnesium binding site 8 out of 30 in the Rba Sphaeroides Pufy-Ko Rc-LH1 Monomer


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Rba Sphaeroides Pufy-Ko Rc-LH1 Monomer within 5.0Å range: probe atom residue distance (Å) B Occ E:Mg101 b:11.0 occ:1.00 MG E:BCL101 0.0 11.0 1.0 ND E:BCL101 2.0 11.0 1.0 NB E:BCL101 2.1 11.0 1.0 NC E:BCL101 2.1 11.0 1.0 NA E:BCL101 2.2 11.0 1.0 NE2 E:HIS39 2.7 10.7 1.0 C4D E:BCL101 3.0 11.0 1.0 C4B E:BCL101 3.1 11.0 1.0 C1B E:BCL101 3.1 11.0 1.0 C1C E:BCL101 3.1 11.0 1.0 C4A E:BCL101 3.1 11.0 1.0 C1D E:BCL101 3.1 11.0 1.0 C4C E:BCL101 3.2 11.0 1.0 C1A E:BCL101 3.2 11.0 1.0 CD2 E:HIS39 3.2 10.7 1.0 CHC E:BCL101 3.4 11.0 1.0 CHB E:BCL101 3.4 11.0 1.0 CHA E:BCL101 3.4 11.0 1.0 CHD E:BCL101 3.5 11.0 1.0 CE1 E:HIS39 3.9 10.7 1.0 C3D E:BCL101 4.2 11.0 1.0 CMB F:BCL101 4.2 9.2 1.0 C2B E:BCL101 4.3 11.0 1.0 C3B E:BCL101 4.3 11.0 1.0 C2D E:BCL101 4.3 11.0 1.0 CBB F:BCL101 4.4 9.2 1.0 C2C E:BCL101 4.4 11.0 1.0 C3A E:BCL101 4.4 11.0 1.0 C2A E:BCL101 4.5 11.0 1.0 C3C E:BCL101 4.5 11.0 1.0 CG E:HIS39 4.6 10.7 1.0 C2B F:BCL101 4.8 9.2 1.0 CAB F:BCL101 4.9 9.2 1.0 ND1 E:HIS39 4.9 10.7 1.0 CD1 D:ILE31 4.9 9.1 1.0 CBD E:BCL101 4.9 11.0 1.0

Magnesium binding site 9 out of 30 in the Rba Sphaeroides Pufy-Ko Rc-LH1 Monomer


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Rba Sphaeroides Pufy-Ko Rc-LH1 Monomer within 5.0Å range: probe atom residue distance (Å) B Occ F:Mg101 b:9.2 occ:1.00 MG F:BCL101 0.0 9.2 1.0 ND F:BCL101 2.0 9.2 1.0 NB F:BCL101 2.1 9.2 1.0 NC F:BCL101 2.1 9.2 1.0 NA F:BCL101 2.2 9.2 1.0 C4D F:BCL101 3.0 9.2 1.0 NE2 F:HIS32 3.0 4.0 1.0 C4B F:BCL101 3.1 9.2 1.0 C1B F:BCL101 3.1 9.2 1.0 C1C F:BCL101 3.1 9.2 1.0 C1D F:BCL101 3.1 9.2 1.0 C4A F:BCL101 3.1 9.2 1.0 C4C F:BCL101 3.2 9.2 1.0 C1A F:BCL101 3.2 9.2 1.0 CHC F:BCL101 3.4 9.2 1.0 CHB F:BCL101 3.4 9.2 1.0 CHA F:BCL101 3.4 9.2 1.0 CHD F:BCL101 3.5 9.2 1.0 C16 E:SPO102 3.8 17.0 1.0 CBB E:BCL101 3.9 11.0 1.0 C19 E:SPO102 3.9 17.0 1.0 CE1 F:HIS32 3.9 4.0 1.0 CD2 F:HIS32 4.0 4.0 1.0 C3D F:BCL101 4.2 9.2 1.0 C2B F:BCL101 4.3 9.2 1.0 C2D F:BCL101 4.3 9.2 1.0 CMB E:BCL101 4.3 11.0 1.0 C3B F:BCL101 4.3 9.2 1.0 C2C F:BCL101 4.4 9.2 1.0 C3A F:BCL101 4.4 9.2 1.0 C17 E:SPO102 4.4 17.0 1.0 C3C F:BCL101 4.4 9.2 1.0 C2A F:BCL101 4.5 9.2 1.0 C2B E:BCL101 4.8 11.0 1.0 C15 E:SPO102 4.8 17.0 1.0 CAB E:BCL101 4.9 11.0 1.0 CBD F:BCL101 4.9 9.2 1.0

Magnesium binding site 10 out of 30 in the Rba Sphaeroides Pufy-Ko Rc-LH1 Monomer


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of Rba Sphaeroides Pufy-Ko Rc-LH1 Monomer within 5.0Å range: probe atom residue distance (Å) B Occ F:Mg102 b:10.0 occ:1.00 MG F:BCL102 0.0 10.0 1.0 ND F:BCL102 2.0 10.0 1.0 NB F:BCL102 2.1 10.0 1.0 NC F:BCL102 2.1 10.0 1.0 NA F:BCL102 2.2 10.0 1.0 NE2 G:HIS39 2.7 9.0 1.0 C4D F:BCL102 3.0 10.0 1.0 C4B F:BCL102 3.1 10.0 1.0 C1B F:BCL102 3.1 10.0 1.0 C1C F:BCL102 3.1 10.0 1.0 C4A F:BCL102 3.1 10.0 1.0 C1D F:BCL102 3.1 10.0 1.0 C4C F:BCL102 3.2 10.0 1.0 C1A F:BCL102 3.2 10.0 1.0 CD2 G:HIS39 3.2 9.0 1.0 CHC F:BCL102 3.4 10.0 1.0 CHB F:BCL102 3.4 10.0 1.0 CHA F:BCL102 3.4 10.0 1.0 CHD F:BCL102 3.5 10.0 1.0 CE1 G:HIS39 3.9 9.0 1.0 C3D F:BCL102 4.2 10.0 1.0 CMB I:BCL101 4.3 10.1 1.0 C2B F:BCL102 4.3 10.0 1.0 C3B F:BCL102 4.3 10.0 1.0 C2D F:BCL102 4.3 10.0 1.0 CBB I:BCL101 4.4 10.1 1.0 C2C F:BCL102 4.4 10.0 1.0 C3A F:BCL102 4.5 10.0 1.0 C3C F:BCL102 4.5 10.0 1.0 C2A F:BCL102 4.5 10.0 1.0 CG G:HIS39 4.6 9.0 1.0 ND1 G:HIS39 4.9 9.0 1.0 CAB I:BCL101 4.9 10.1 1.0 C2B I:BCL101 4.9 10.1 1.0 CBD F:BCL102 4.9 10.0 1.0 CD1 F:ILE31 5.0 6.8 1.0

P.Cao, L.Bracun, A.Yamagata, B.M.Christianson, T.Negami, B.Zou, T.Terada, D.P.Canniffe, M.Shirouzu, M.Li, L.N.Liu. Structural Basis For the Assembly and Quinone Transport Mechanisms of the Dimeric Photosynthetic Rc-LH1 Supercomplex. Nat Commun V. 13 1977 2022.
ISSN: ESSN 2041-1723
PubMed: 35418573
DOI: 10.1038/S41467-022-29563-3