Magnesium in PDB 1pyh: Crystal Structure of Rc-LH1 Core Complex From Rhodopseudomonas Palustris

The structure of Crystal Structure of Rc-LH1 Core Complex From Rhodopseudomonas Palustris, PDB code: 1pyh was solved by A.W.Roszak, T.D.Howard, J.Southall, A.T.Gardiner, C.J.Law, N.W.Isaacs, R.J.Cogdell, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	60.00 / 4.80
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	76.037, 119.024, 130.432, 69.32, 72.69, 66.52
R / Rfree (%)	46.7 / 49.1

The structure of Crystal Structure of Rc-LH1 Core Complex From Rhodopseudomonas Palustris 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; Page 4, Binding sites: 31 - 34;

Binding sites:

The binding sites of Magnesium atom in the Crystal Structure of Rc-LH1 Core Complex From Rhodopseudomonas Palustris (pdb code 1pyh). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 34 binding sites of Magnesium where determined in the Crystal Structure of Rc-LH1 Core Complex From Rhodopseudomonas Palustris, PDB code: 1pyh:
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 Crystal Structure of Rc-LH1 Core Complex From Rhodopseudomonas Palustris


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Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of Rc-LH1 Core Complex From Rhodopseudomonas Palustris within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg301 b:0.3 occ:1.00 MG A:BCL301 0.0 0.3 1.0 ND A:BCL301 2.1 0.3 1.0 NB A:BCL301 2.1 0.3 1.0 NC A:BCL301 2.1 0.3 1.0 NA A:BCL301 2.2 0.3 1.0 C4D A:BCL301 3.0 0.3 1.0 C1B A:BCL301 3.1 0.3 1.0 C4B A:BCL301 3.1 0.3 1.0 C1C A:BCL301 3.1 0.3 1.0 C1D A:BCL301 3.1 0.3 1.0 C4A A:BCL301 3.1 0.3 1.0 C4C A:BCL301 3.1 0.3 1.0 C1A A:BCL301 3.2 0.3 1.0 CHC A:BCL301 3.4 0.3 1.0 CHB A:BCL301 3.4 0.3 1.0 CHD A:BCL301 3.4 0.3 1.0 CHA A:BCL301 3.5 0.3 1.0 C3D A:BCL301 4.2 0.3 1.0 C2D A:BCL301 4.3 0.3 1.0 C2B A:BCL301 4.3 0.3 1.0 C3B A:BCL301 4.3 0.3 1.0 C3C A:BCL301 4.4 0.3 1.0 C2C A:BCL301 4.4 0.3 1.0 C3A A:BCL301 4.4 0.3 1.0 C2A A:BCL301 4.5 0.3 1.0 CBB A:BPH401 4.8 0.3 1.0 CBD A:BCL301 4.9 0.3 1.0 CMA A:BCL301 5.0 0.3 1.0

Magnesium binding site 2 out of 34 in the Crystal Structure of Rc-LH1 Core Complex From Rhodopseudomonas Palustris


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Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of Rc-LH1 Core Complex From Rhodopseudomonas Palustris within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg302 b:0.3 occ:1.00 MG A:BCL302 0.0 0.3 1.0 ND A:BCL302 2.0 0.3 1.0 NB A:BCL302 2.1 0.3 1.0 NC A:BCL302 2.1 0.3 1.0 NA A:BCL302 2.2 0.3 1.0 C4D A:BCL302 3.0 0.3 1.0 C1B A:BCL302 3.1 0.3 1.0 C1C A:BCL302 3.1 0.3 1.0 C4B A:BCL302 3.1 0.3 1.0 C4C A:BCL302 3.1 0.3 1.0 C1D A:BCL302 3.1 0.3 1.0 C4A A:BCL302 3.1 0.3 1.0 C1A A:BCL302 3.2 0.3 1.0 CHB A:BCL302 3.4 0.3 1.0 CHC A:BCL302 3.4 0.3 1.0 CHD A:BCL302 3.4 0.3 1.0 CHA A:BCL302 3.5 0.3 1.0 CBB B:BCL303 3.7 0.3 1.0 CAB B:BCL303 3.9 0.3 1.0 OBB B:BCL303 4.0 0.3 1.0 C3D A:BCL302 4.2 0.3 1.0 C2D A:BCL302 4.3 0.3 1.0 C2B A:BCL302 4.3 0.3 1.0 C3B A:BCL302 4.3 0.3 1.0 C3C A:BCL302 4.4 0.3 1.0 C2C A:BCL302 4.4 0.3 1.0 C3A A:BCL302 4.4 0.3 1.0 C2A A:BCL302 4.6 0.3 1.0 C3B B:BCL303 4.7 0.3 1.0 CMA A:BCL302 4.9 0.3 1.0 CBD A:BCL302 4.9 0.3 1.0

Magnesium binding site 3 out of 34 in the Crystal Structure of Rc-LH1 Core Complex From Rhodopseudomonas Palustris


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Crystal Structure of Rc-LH1 Core Complex From Rhodopseudomonas Palustris within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg303 b:0.3 occ:1.00 MG B:BCL303 0.0 0.3 1.0 ND B:BCL303 2.0 0.3 1.0 NB B:BCL303 2.1 0.3 1.0 NC B:BCL303 2.1 0.3 1.0 NA B:BCL303 2.2 0.3 1.0 C4D B:BCL303 2.9 0.3 1.0 C1B B:BCL303 3.0 0.3 1.0 C1C B:BCL303 3.1 0.3 1.0 C4B B:BCL303 3.1 0.3 1.0 C4A B:BCL303 3.1 0.3 1.0 C1D B:BCL303 3.1 0.3 1.0 C4C B:BCL303 3.1 0.3 1.0 C1A B:BCL303 3.2 0.3 1.0 CHB B:BCL303 3.4 0.3 1.0 CHA B:BCL303 3.4 0.3 1.0 CHC B:BCL303 3.4 0.3 1.0 CHD B:BCL303 3.5 0.3 1.0 CBB A:BCL302 3.5 0.3 1.0 CAB A:BCL302 3.9 0.3 1.0 OBB A:BCL302 4.1 0.3 1.0 C3D B:BCL303 4.2 0.3 1.0 C2B B:BCL303 4.3 0.3 1.0 C2D B:BCL303 4.3 0.3 1.0 C3B B:BCL303 4.3 0.3 1.0 C2C B:BCL303 4.4 0.3 1.0 C3A B:BCL303 4.4 0.3 1.0 C3C B:BCL303 4.4 0.3 1.0 C2A B:BCL303 4.5 0.3 1.0 C3B A:BCL302 4.6 0.3 1.0 CBD B:BCL303 4.8 0.3 1.0 O2D B:BCL303 5.0 0.3 1.0 CMC B:BCL303 5.0 0.3 1.0

Magnesium binding site 4 out of 34 in the Crystal Structure of Rc-LH1 Core Complex From Rhodopseudomonas Palustris


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Crystal Structure of Rc-LH1 Core Complex From Rhodopseudomonas Palustris within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg304 b:0.3 occ:1.00 MG B:BCL304 0.0 0.3 1.0 ND B:BCL304 2.0 0.3 1.0 NC B:BCL304 2.1 0.3 1.0 NB B:BCL304 2.1 0.3 1.0 NA B:BCL304 2.2 0.3 1.0 C4D B:BCL304 2.9 0.3 1.0 C1C B:BCL304 3.0 0.3 1.0 C1D B:BCL304 3.1 0.3 1.0 C4B B:BCL304 3.1 0.3 1.0 C1B B:BCL304 3.1 0.3 1.0 C4A B:BCL304 3.1 0.3 1.0 C4C B:BCL304 3.1 0.3 1.0 C1A B:BCL304 3.2 0.3 1.0 CHC B:BCL304 3.4 0.3 1.0 CHB B:BCL304 3.4 0.3 1.0 CHA B:BCL304 3.4 0.3 1.0 CHD B:BCL304 3.4 0.3 1.0 C3D B:BCL304 4.1 0.3 1.0 C2D B:BCL304 4.2 0.3 1.0 C3B B:BCL304 4.3 0.3 1.0 C2B B:BCL304 4.3 0.3 1.0 C2C B:BCL304 4.3 0.3 1.0 C3A B:BCL304 4.4 0.3 1.0 C3C B:BCL304 4.4 0.3 1.0 CBB B:BPH402 4.5 0.3 1.0 C2A B:BCL304 4.5 0.3 1.0 CBC B:BCL304 4.8 0.3 1.0 CBD B:BCL304 4.9 0.3 1.0 CMA B:BCL304 5.0 0.3 1.0 CBA B:BCL304 5.0 0.3 1.0 C19 B:BPH402 5.0 0.3 1.0

Magnesium binding site 5 out of 34 in the Crystal Structure of Rc-LH1 Core Complex From Rhodopseudomonas Palustris


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Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Crystal Structure of Rc-LH1 Core Complex From Rhodopseudomonas Palustris within 5.0Å range: probe atom residue distance (Å) B Occ E:Mg1 b:0.3 occ:1.00 MG E:BCL1 0.0 0.3 1.0 NB E:BCL1 2.0 0.3 1.0 ND E:BCL1 2.1 0.3 1.0 NC E:BCL1 2.1 0.3 1.0 NA E:BCL1 2.1 0.3 1.0 C4A E:BCL1 3.1 0.3 1.0 C1C E:BCL1 3.1 0.3 1.0 C4D E:BCL1 3.1 0.3 1.0 C4B E:BCL1 3.1 0.3 1.0 C1D E:BCL1 3.1 0.3 1.0 C1B E:BCL1 3.1 0.3 1.0 C4C E:BCL1 3.1 0.3 1.0 C1A E:BCL1 3.1 0.3 1.0 CHC E:BCL1 3.4 0.3 1.0 CHB E:BCL1 3.5 0.3 1.0 CHA E:BCL1 3.5 0.3 1.0 CHD E:BCL1 3.5 0.3 1.0 C3D E:BCL1 4.2 0.3 1.0 C2B E:BCL1 4.2 0.3 1.0 C3B E:BCL1 4.2 0.3 1.0 C2D E:BCL1 4.3 0.3 1.0 C3A E:BCL1 4.4 0.3 1.0 C2C E:BCL1 4.5 0.3 1.0 C2A E:BCL1 4.5 0.3 1.0 C3C E:BCL1 4.5 0.3 1.0 CBD E:BCL1 5.0 0.3 1.0

Magnesium binding site 6 out of 34 in the Crystal Structure of Rc-LH1 Core Complex From Rhodopseudomonas Palustris


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Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Crystal Structure of Rc-LH1 Core Complex From Rhodopseudomonas Palustris within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg2 b:0.3 occ:1.00 MG D:BCL2 0.0 0.3 1.0 NB D:BCL2 2.0 0.3 1.0 NA D:BCL2 2.0 0.3 1.0 NC D:BCL2 2.2 0.3 1.0 ND D:BCL2 2.2 0.3 1.0 C1B D:BCL2 2.9 0.3 1.0 C4A D:BCL2 3.0 0.3 1.0 C4B D:BCL2 3.0 0.3 1.0 C1A D:BCL2 3.1 0.3 1.0 C1C D:BCL2 3.2 0.3 1.0 CHB D:BCL2 3.2 0.3 1.0 C4D D:BCL2 3.2 0.3 1.0 C4C D:BCL2 3.3 0.3 1.0 C1D D:BCL2 3.3 0.3 1.0 CHC D:BCL2 3.5 0.3 1.0 CHA D:BCL2 3.6 0.3 1.0 CHD D:BCL2 3.7 0.3 1.0 C3B D:BCL2 4.2 0.3 1.0 C2B D:BCL2 4.2 0.3 1.0 C3A D:BCL2 4.4 0.3 1.0 C3D D:BCL2 4.4 0.3 1.0 C2A D:BCL2 4.4 0.3 1.0 C2D D:BCL2 4.5 0.3 1.0 C3C D:BCL2 4.6 0.3 1.0 C2C D:BCL2 4.6 0.3 1.0 CMB G:BCL3 4.8 0.3 1.0 C2B G:BCL3 4.9 0.3 1.0

Magnesium binding site 7 out of 34 in the Crystal Structure of Rc-LH1 Core Complex From Rhodopseudomonas Palustris


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Crystal Structure of Rc-LH1 Core Complex From Rhodopseudomonas Palustris within 5.0Å range: probe atom residue distance (Å) B Occ G:Mg3 b:0.3 occ:1.00 MG G:BCL3 0.0 0.3 1.0 NB G:BCL3 2.0 0.3 1.0 ND G:BCL3 2.1 0.3 1.0 NC G:BCL3 2.1 0.3 1.0 NA G:BCL3 2.1 0.3 1.0 C4A G:BCL3 3.1 0.3 1.0 C1C G:BCL3 3.1 0.3 1.0 C4D G:BCL3 3.1 0.3 1.0 C4B G:BCL3 3.1 0.3 1.0 C1D G:BCL3 3.1 0.3 1.0 C1B G:BCL3 3.1 0.3 1.0 C1A G:BCL3 3.1 0.3 1.0 C4C G:BCL3 3.1 0.3 1.0 CHC G:BCL3 3.4 0.3 1.0 CHB G:BCL3 3.5 0.3 1.0 CHA G:BCL3 3.5 0.3 1.0 CHD G:BCL3 3.5 0.3 1.0 C3D G:BCL3 4.2 0.3 1.0 C2B G:BCL3 4.2 0.3 1.0 C3B G:BCL3 4.3 0.3 1.0 C2D G:BCL3 4.3 0.3 1.0 C3A G:BCL3 4.4 0.3 1.0 C2C G:BCL3 4.5 0.3 1.0 C2A G:BCL3 4.5 0.3 1.0 C3C G:BCL3 4.5 0.3 1.0 CBD G:BCL3 5.0 0.3 1.0

Magnesium binding site 8 out of 34 in the Crystal Structure of Rc-LH1 Core Complex From Rhodopseudomonas Palustris


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Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Crystal Structure of Rc-LH1 Core Complex From Rhodopseudomonas Palustris within 5.0Å range: probe atom residue distance (Å) B Occ F:Mg4 b:0.3 occ:1.00 MG F:BCL4 0.0 0.3 1.0 NB F:BCL4 2.0 0.3 1.0 NA F:BCL4 2.0 0.3 1.0 NC F:BCL4 2.2 0.3 1.0 ND F:BCL4 2.2 0.3 1.0 C1B F:BCL4 2.9 0.3 1.0 C4A F:BCL4 3.0 0.3 1.0 C4B F:BCL4 3.0 0.3 1.0 C1A F:BCL4 3.1 0.3 1.0 C1C F:BCL4 3.2 0.3 1.0 CHB F:BCL4 3.2 0.3 1.0 C4D F:BCL4 3.2 0.3 1.0 C4C F:BCL4 3.3 0.3 1.0 C1D F:BCL4 3.3 0.3 1.0 CHC F:BCL4 3.5 0.3 1.0 CHA F:BCL4 3.6 0.3 1.0 CHD F:BCL4 3.7 0.3 1.0 C3B F:BCL4 4.2 0.3 1.0 C2B F:BCL4 4.2 0.3 1.0 C3A F:BCL4 4.4 0.3 1.0 C2A F:BCL4 4.4 0.3 1.0 C3D F:BCL4 4.4 0.3 1.0 CMB I:BCL5 4.5 0.3 1.0 OBB I:BCL5 4.5 0.3 1.0 C2D F:BCL4 4.5 0.3 1.0 C3C F:BCL4 4.6 0.3 1.0 C2C F:BCL4 4.6 0.3 1.0

Magnesium binding site 9 out of 34 in the Crystal Structure of Rc-LH1 Core Complex From Rhodopseudomonas Palustris


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Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Crystal Structure of Rc-LH1 Core Complex From Rhodopseudomonas Palustris within 5.0Å range: probe atom residue distance (Å) B Occ I:Mg5 b:0.3 occ:1.00 MG I:BCL5 0.0 0.3 1.0 NB I:BCL5 2.0 0.3 1.0 ND I:BCL5 2.1 0.3 1.0 NC I:BCL5 2.1 0.3 1.0 NA I:BCL5 2.1 0.3 1.0 C4A I:BCL5 3.1 0.3 1.0 C1C I:BCL5 3.1 0.3 1.0 C4D I:BCL5 3.1 0.3 1.0 C4B I:BCL5 3.1 0.3 1.0 C1D I:BCL5 3.1 0.3 1.0 C1B I:BCL5 3.1 0.3 1.0 C1A I:BCL5 3.1 0.3 1.0 C4C I:BCL5 3.1 0.3 1.0 CHC I:BCL5 3.4 0.3 1.0 CHB I:BCL5 3.5 0.3 1.0 CHA I:BCL5 3.5 0.3 1.0 CHD I:BCL5 3.5 0.3 1.0 C3D I:BCL5 4.2 0.3 1.0 C2B I:BCL5 4.2 0.3 1.0 C3B I:BCL5 4.3 0.3 1.0 C2D I:BCL5 4.3 0.3 1.0 C3A I:BCL5 4.4 0.3 1.0 C2C I:BCL5 4.5 0.3 1.0 C2A I:BCL5 4.5 0.3 1.0 C3C I:BCL5 4.5 0.3 1.0 CMB F:BCL4 4.8 0.3 1.0 CBD I:BCL5 5.0 0.3 1.0

Magnesium binding site 10 out of 34 in the Crystal Structure of Rc-LH1 Core Complex From Rhodopseudomonas Palustris


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of Crystal Structure of Rc-LH1 Core Complex From Rhodopseudomonas Palustris within 5.0Å range: probe atom residue distance (Å) B Occ H:Mg6 b:0.3 occ:1.00 MG H:BCL6 0.0 0.3 1.0 NB H:BCL6 2.0 0.3 1.0 NA H:BCL6 2.0 0.3 1.0 NC H:BCL6 2.2 0.3 1.0 ND H:BCL6 2.2 0.3 1.0 C1B H:BCL6 2.9 0.3 1.0 C4A H:BCL6 3.0 0.3 1.0 C4B H:BCL6 3.0 0.3 1.0 C1A H:BCL6 3.1 0.3 1.0 C1C H:BCL6 3.2 0.3 1.0 CHB H:BCL6 3.2 0.3 1.0 C4D H:BCL6 3.2 0.3 1.0 C4C H:BCL6 3.3 0.3 1.0 C1D H:BCL6 3.3 0.3 1.0 CHC H:BCL6 3.5 0.3 1.0 CHA H:BCL6 3.6 0.3 1.0 CHD H:BCL6 3.7 0.3 1.0 C3B H:BCL6 4.2 0.3 1.0 C2B H:BCL6 4.2 0.3 1.0 C3A H:BCL6 4.4 0.3 1.0 C3D H:BCL6 4.4 0.3 1.0 C2A H:BCL6 4.4 0.3 1.0 C2D H:BCL6 4.5 0.3 1.0 C3C H:BCL6 4.6 0.3 1.0 C2C H:BCL6 4.6 0.3 1.0 OBD I:BCL5 4.7 0.3 1.0 CMD I:BCL5 4.9 0.3 1.0 CMB K:BCL36 4.9 0.3 1.0

A.W.Roszak, T.D.Howard, J.Southall, A.T.Gardiner, C.J.Law, N.W.Isaacs, R.J.Cogdell. Crystal Structure of the Rc-LH1 Core Complex From Rhodopseudomonas Palustris. Science V. 302 1969 2003.
ISSN: ISSN 0036-8075
PubMed: 14671305
DOI: 10.1126/SCIENCE.1088892