Magnesium in PDB 1vcr: An Icosahedral Assembly of Light-Harvesting Chlorophyll A/B Protein Complex From Pea Thylakoid Membranes

The structure of An Icosahedral Assembly of Light-Harvesting Chlorophyll A/B Protein Complex From Pea Thylakoid Membranes, PDB code: 1vcr was solved by T.Hino, E.Kanamori, J.-R.Shen, T.Kouyama, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20.00 / 9.50
Space group	F 2 3 2
Cell size a, b, c (Å), α, β, γ (°)	360.646, 360.646, 360.646, 90.00, 90.00, 90.00
R / Rfree (%)	37.9 / 35.3

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>>> Page 1 <<< Page 2, Binding sites: 11 - 12;

Binding sites:

The binding sites of Magnesium atom in the An Icosahedral Assembly of Light-Harvesting Chlorophyll A/B Protein Complex From Pea Thylakoid Membranes (pdb code 1vcr). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 12 binding sites of Magnesium where determined in the An Icosahedral Assembly of Light-Harvesting Chlorophyll A/B Protein Complex From Pea Thylakoid Membranes, PDB code: 1vcr:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 12 in the An Icosahedral Assembly of Light-Harvesting Chlorophyll A/B Protein Complex From Pea Thylakoid Membranes


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of An Icosahedral Assembly of Light-Harvesting Chlorophyll A/B Protein Complex From Pea Thylakoid Membranes within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg251 b:0.9 occ:1.00 MG A:CLA251 0.0 0.9 1.0 NB A:CLA251 2.0 0.4 1.0 NC A:CLA251 2.0 0.5 1.0 ND A:CLA251 2.1 0.5 1.0 NA A:CLA251 2.2 0.4 1.0 C4B A:CLA251 3.0 0.9 1.0 C1B A:CLA251 3.0 0.4 1.0 C1C A:CLA251 3.0 0.5 1.0 C4D A:CLA251 3.1 0.5 1.0 C4C A:CLA251 3.1 0.5 1.0 C4A A:CLA251 3.1 0.3 1.0 C1D A:CLA251 3.2 0.5 1.0 C1A A:CLA251 3.3 0.2 1.0 CHC A:CLA251 3.3 0.5 1.0 CHB A:CLA251 3.3 0.8 1.0 CHD A:CLA251 3.5 0.5 1.0 CHA A:CLA251 3.6 0.5 1.0 C3B A:CLA251 4.2 0.8 1.0 C2B A:CLA251 4.2 0.6 1.0 C3D A:CLA251 4.3 0.5 1.0 C2C A:CLA251 4.4 0.5 1.0 C3C A:CLA251 4.4 0.5 1.0 C2D A:CLA251 4.4 0.5 1.0 C3A A:CLA251 4.5 0.7 1.0 C2A A:CLA251 4.6 0.2 1.0 CB A:GLU180 4.8 0.5 1.0

Magnesium binding site 2 out of 12 in the An Icosahedral Assembly of Light-Harvesting Chlorophyll A/B Protein Complex From Pea Thylakoid Membranes


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of An Icosahedral Assembly of Light-Harvesting Chlorophyll A/B Protein Complex From Pea Thylakoid Membranes within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg252 b:0.5 occ:1.00 MG A:CLA252 0.0 0.5 1.0 NB A:CLA252 2.0 0.5 1.0 NC A:CLA252 2.1 0.5 1.0 ND A:CLA252 2.1 0.5 1.0 NA A:CLA252 2.2 0.5 1.0 C4B A:CLA252 3.0 0.4 1.0 C1B A:CLA252 3.0 0.5 1.0 C1C A:CLA252 3.0 0.2 1.0 C4D A:CLA252 3.1 0.5 1.0 C4C A:CLA252 3.1 0.5 1.0 C4A A:CLA252 3.1 0.5 1.0 C1D A:CLA252 3.2 0.5 1.0 C1A A:CLA252 3.3 0.5 1.0 CHC A:CLA252 3.3 1.0 1.0 CHB A:CLA252 3.4 0.5 1.0 CHD A:CLA252 3.5 0.5 1.0 CHA A:CLA252 3.6 0.5 1.0 C2B A:CLA252 4.2 0.5 1.0 C3B A:CLA252 4.2 0.5 1.0 C3D A:CLA252 4.3 0.5 1.0 C2C A:CLA252 4.4 0.2 1.0 C3C A:CLA252 4.4 0.5 1.0 C2D A:CLA252 4.4 0.4 1.0 C3A A:CLA252 4.5 0.5 1.0 C2A A:CLA252 4.6 0.5 1.0

Magnesium binding site 3 out of 12 in the An Icosahedral Assembly of Light-Harvesting Chlorophyll A/B Protein Complex From Pea Thylakoid Membranes


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of An Icosahedral Assembly of Light-Harvesting Chlorophyll A/B Protein Complex From Pea Thylakoid Membranes within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg253 b:0.5 occ:1.00 MG A:CLA253 0.0 0.5 1.0 NB A:CLA253 2.0 0.5 1.0 NC A:CLA253 2.1 0.4 1.0 ND A:CLA253 2.1 0.5 1.0 NA A:CLA253 2.2 0.5 1.0 C4B A:CLA253 2.9 0.4 1.0 C1B A:CLA253 3.0 0.5 1.0 C1C A:CLA253 3.0 0.8 1.0 C4D A:CLA253 3.1 0.4 1.0 C4C A:CLA253 3.1 0.3 1.0 C4A A:CLA253 3.1 0.5 1.0 C1D A:CLA253 3.2 0.5 1.0 C1A A:CLA253 3.3 0.5 1.0 CHC A:CLA253 3.3 0.6 1.0 CHB A:CLA253 3.4 0.5 1.0 CHD A:CLA253 3.5 0.5 1.0 CHA A:CLA253 3.6 0.4 1.0 C3B A:CLA253 4.2 0.5 1.0 C2B A:CLA253 4.2 0.5 1.0 C3D A:CLA253 4.3 0.5 1.0 C2C A:CLA253 4.4 0.2 1.0 C2D A:CLA253 4.4 0.5 1.0 C3C A:CLA253 4.4 0.0 1.0 C3A A:CLA253 4.5 0.5 1.0 C2A A:CLA253 4.6 0.5 1.0

Magnesium binding site 4 out of 12 in the An Icosahedral Assembly of Light-Harvesting Chlorophyll A/B Protein Complex From Pea Thylakoid Membranes


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of An Icosahedral Assembly of Light-Harvesting Chlorophyll A/B Protein Complex From Pea Thylakoid Membranes within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg254 b:0.5 occ:1.00 MG A:CLA254 0.0 0.5 1.0 NB A:CLA254 2.0 0.5 1.0 NC A:CLA254 2.1 0.5 1.0 ND A:CLA254 2.1 0.5 1.0 NA A:CLA254 2.2 0.0 1.0 C4B A:CLA254 2.9 0.5 1.0 C1B A:CLA254 3.0 0.5 1.0 C1C A:CLA254 3.0 0.5 1.0 C4D A:CLA254 3.1 0.5 1.0 C4C A:CLA254 3.1 0.5 1.0 C4A A:CLA254 3.1 0.4 1.0 C1D A:CLA254 3.2 0.5 1.0 C1A A:CLA254 3.3 0.9 1.0 CHC A:CLA254 3.3 0.5 1.0 CHB A:CLA254 3.4 0.6 1.0 CHD A:CLA254 3.5 0.5 1.0 CHA A:CLA254 3.6 0.5 1.0 C3B A:CLA254 4.2 0.5 1.0 C2B A:CLA254 4.2 0.5 1.0 C3D A:CLA254 4.3 0.5 1.0 C2C A:CLA254 4.4 1.0 1.0 C2D A:CLA254 4.4 0.1 1.0 C3C A:CLA254 4.4 0.5 1.0 C3A A:CLA254 4.5 0.1 1.0 C2A A:CLA254 4.6 0.4 1.0

Magnesium binding site 5 out of 12 in the An Icosahedral Assembly of Light-Harvesting Chlorophyll A/B Protein Complex From Pea Thylakoid Membranes


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of An Icosahedral Assembly of Light-Harvesting Chlorophyll A/B Protein Complex From Pea Thylakoid Membranes within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg255 b:0.5 occ:1.00 MG A:CLA255 0.0 0.5 1.0 NB A:CLA255 2.0 0.5 1.0 NC A:CLA255 2.1 0.5 1.0 ND A:CLA255 2.1 0.5 1.0 NA A:CLA255 2.2 0.5 1.0 C4B A:CLA255 3.0 0.5 1.0 C1B A:CLA255 3.0 0.5 1.0 C1C A:CLA255 3.0 0.3 1.0 C4D A:CLA255 3.1 0.5 1.0 C4C A:CLA255 3.1 0.5 1.0 C4A A:CLA255 3.1 0.5 1.0 C1D A:CLA255 3.2 0.5 1.0 C1A A:CLA255 3.3 0.5 1.0 CHC A:CLA255 3.3 0.5 1.0 CHB A:CLA255 3.4 0.5 1.0 CHD A:CLA255 3.5 0.5 1.0 CHA A:CLA255 3.6 0.5 1.0 C2B A:CLA255 4.2 0.5 1.0 C3B A:CLA255 4.2 0.5 1.0 C3D A:CLA255 4.3 0.5 1.0 C2C A:CLA255 4.4 0.2 1.0 C3C A:CLA255 4.4 0.3 1.0 C2D A:CLA255 4.4 0.5 1.0 C3A A:CLA255 4.5 0.5 1.0 C2A A:CLA255 4.6 0.5 1.0

Magnesium binding site 6 out of 12 in the An Icosahedral Assembly of Light-Harvesting Chlorophyll A/B Protein Complex From Pea Thylakoid Membranes


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of An Icosahedral Assembly of Light-Harvesting Chlorophyll A/B Protein Complex From Pea Thylakoid Membranes within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg256 b:0.5 occ:1.00 MG A:CLA256 0.0 0.5 1.0 NB A:CLA256 2.0 0.5 1.0 NC A:CLA256 2.0 0.5 1.0 ND A:CLA256 2.1 0.6 1.0 NA A:CLA256 2.2 0.5 1.0 C4B A:CLA256 3.0 0.5 1.0 C1B A:CLA256 3.0 0.5 1.0 C1C A:CLA256 3.0 0.5 1.0 C4D A:CLA256 3.1 0.8 1.0 C4C A:CLA256 3.1 0.5 1.0 C4A A:CLA256 3.1 0.5 1.0 C1D A:CLA256 3.2 0.4 1.0 C1A A:CLA256 3.3 0.7 1.0 CHC A:CLA256 3.3 0.5 1.0 CHB A:CLA256 3.4 0.5 1.0 CHD A:CLA256 3.5 0.9 1.0 CHA A:CLA256 3.6 0.8 1.0 C3B A:CLA256 4.2 0.5 1.0 C2B A:CLA256 4.2 0.5 1.0 C3D A:CLA256 4.3 0.1 1.0 C2C A:CLA256 4.4 0.5 1.0 C3C A:CLA256 4.4 0.5 1.0 C2D A:CLA256 4.4 0.3 1.0 C3A A:CLA256 4.5 0.9 1.0 O A:GLY78 4.5 0.5 1.0 C2A A:CLA256 4.6 0.3 1.0

Magnesium binding site 7 out of 12 in the An Icosahedral Assembly of Light-Harvesting Chlorophyll A/B Protein Complex From Pea Thylakoid Membranes


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of An Icosahedral Assembly of Light-Harvesting Chlorophyll A/B Protein Complex From Pea Thylakoid Membranes within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg257 b:0.5 occ:1.00 MG A:CLA257 0.0 0.5 1.0 NB A:CLA257 2.0 0.5 1.0 NC A:CLA257 2.1 0.5 1.0 ND A:CLA257 2.1 0.5 1.0 NA A:CLA257 2.2 0.5 1.0 C4B A:CLA257 2.9 0.5 1.0 C1B A:CLA257 3.0 0.5 1.0 C1C A:CLA257 3.0 0.5 1.0 C4D A:CLA257 3.1 0.5 1.0 C4C A:CLA257 3.1 0.5 1.0 C4A A:CLA257 3.1 0.5 1.0 C1D A:CLA257 3.2 0.5 1.0 C1A A:CLA257 3.3 0.5 1.0 CHC A:CLA257 3.3 0.5 1.0 CHB A:CLA257 3.4 0.5 1.0 CHD A:CLA257 3.5 0.5 1.0 CHA A:CLA257 3.6 0.5 1.0 C3B A:CLA257 4.2 0.5 1.0 C2B A:CLA257 4.2 0.5 1.0 C3D A:CLA257 4.3 0.5 1.0 C2C A:CLA257 4.4 0.5 1.0 C2D A:CLA257 4.4 0.5 1.0 C3C A:CLA257 4.4 0.5 1.0 C3A A:CLA257 4.5 0.5 1.0 C2A A:CLA257 4.6 0.5 1.0

Magnesium binding site 8 out of 12 in the An Icosahedral Assembly of Light-Harvesting Chlorophyll A/B Protein Complex From Pea Thylakoid Membranes


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of An Icosahedral Assembly of Light-Harvesting Chlorophyll A/B Protein Complex From Pea Thylakoid Membranes within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg261 b:0.5 occ:1.00 MG A:CHL261 0.0 0.5 1.0 NB A:CHL261 2.0 0.5 1.0 NC A:CHL261 2.0 0.5 1.0 ND A:CHL261 2.1 0.5 1.0 NA A:CHL261 2.2 0.5 1.0 C4B A:CHL261 2.9 0.5 1.0 C1B A:CHL261 3.0 0.5 1.0 C1C A:CHL261 3.0 0.5 1.0 C4D A:CHL261 3.1 0.5 1.0 C4C A:CHL261 3.1 0.2 1.0 C4A A:CHL261 3.1 0.5 1.0 C1D A:CHL261 3.2 0.8 1.0 C1A A:CHL261 3.3 0.5 1.0 CHC A:CHL261 3.3 0.5 1.0 CHB A:CHL261 3.4 0.5 1.0 CHD A:CHL261 3.5 0.6 1.0 CHA A:CHL261 3.6 0.5 1.0 C3B A:CHL261 4.2 0.5 1.0 C2B A:CHL261 4.2 0.5 1.0 C3D A:CHL261 4.3 0.1 1.0 C2C A:CHL261 4.4 0.5 1.0 C3C A:CHL261 4.4 0.3 1.0 C2D A:CHL261 4.4 0.8 1.0 C3A A:CHL261 4.5 0.3 1.0 C2A A:CHL261 4.6 0.1 1.0

Magnesium binding site 9 out of 12 in the An Icosahedral Assembly of Light-Harvesting Chlorophyll A/B Protein Complex From Pea Thylakoid Membranes


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of An Icosahedral Assembly of Light-Harvesting Chlorophyll A/B Protein Complex From Pea Thylakoid Membranes within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg262 b:0.5 occ:1.00 MG A:CHL262 0.0 0.5 1.0 NB A:CHL262 2.0 0.5 1.0 NC A:CHL262 2.1 0.5 1.0 ND A:CHL262 2.1 0.5 1.0 NA A:CHL262 2.2 0.5 1.0 C4B A:CHL262 3.0 0.5 1.0 C1B A:CHL262 3.0 0.5 1.0 C1C A:CHL262 3.0 0.5 1.0 C4D A:CHL262 3.1 0.5 1.0 C4C A:CHL262 3.1 0.5 1.0 C4A A:CHL262 3.1 0.5 1.0 C1D A:CHL262 3.2 0.5 1.0 C1A A:CHL262 3.3 0.5 1.0 CHC A:CHL262 3.3 0.5 1.0 CHB A:CHL262 3.4 0.5 1.0 CHD A:CHL262 3.5 0.5 1.0 CHA A:CHL262 3.6 0.5 1.0 C2B A:CHL262 4.2 0.5 1.0 C3B A:CHL262 4.2 0.5 1.0 C3D A:CHL262 4.3 0.5 1.0 C2C A:CHL262 4.4 0.6 1.0 C2D A:CHL262 4.4 0.5 1.0 C3C A:CHL262 4.4 0.2 1.0 C3C A:CLA252 4.4 0.5 1.0 C3A A:CHL262 4.5 0.5 1.0 C2A A:CHL262 4.6 0.5 1.0

Magnesium binding site 10 out of 12 in the An Icosahedral Assembly of Light-Harvesting Chlorophyll A/B Protein Complex From Pea Thylakoid Membranes


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of An Icosahedral Assembly of Light-Harvesting Chlorophyll A/B Protein Complex From Pea Thylakoid Membranes within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg263 b:0.5 occ:1.00 MG A:CHL263 0.0 0.5 1.0 NB A:CHL263 2.0 0.6 1.0 NC A:CHL263 2.1 0.5 1.0 ND A:CHL263 2.1 0.5 1.0 NA A:CHL263 2.2 0.5 1.0 C4B A:CHL263 3.0 0.1 1.0 C1B A:CHL263 3.0 0.5 1.0 C1C A:CHL263 3.0 0.5 1.0 C4D A:CHL263 3.1 0.5 1.0 C4C A:CHL263 3.1 0.5 1.0 C4A A:CHL263 3.1 0.5 1.0 C1D A:CHL263 3.2 0.5 1.0 C1A A:CHL263 3.3 0.5 1.0 CHC A:CHL263 3.3 0.6 1.0 CHB A:CHL263 3.4 0.3 1.0 CHD A:CHL263 3.5 0.5 1.0 CHA A:CHL263 3.6 0.5 1.0 C3B A:CHL263 4.2 0.1 1.0 C2B A:CHL263 4.2 0.5 1.0 C3D A:CHL263 4.3 0.5 1.0 C2C A:CHL263 4.4 0.5 1.0 C2D A:CHL263 4.4 0.5 1.0 C3C A:CHL263 4.4 0.5 1.0 C3A A:CHL263 4.5 0.5 1.0 C2A A:CHL263 4.6 0.5 1.0

T.Hino, E.Kanamori, J.R.Shen, T.Kouyama. An Icosahedral Assembly of the Light-Harvesting Chlorophyll A/B Protein Complex From Pea Chloroplast Thylakoid Membranes. Acta Crystallogr.,Sect.D V. 60 803 2004.
ISSN: ISSN 0907-4449
PubMed: 15103124
DOI: 10.1107/S0907444904003233