Magnesium in PDB 6jo5: Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I

Enzymatic activity of Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I

All present enzymatic activity of Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I:
1.97.1.12;

Other elements in 6jo5:

The structure of Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I also contains other interesting chemical elements:

Iron (Fe) 12 atoms

Magnesium Binding Sites:

Magnesium binding site 1 out of 239 in 6jo5

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Magnesium binding site 1 out of 239 in the Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg801

b:20.8
occ:1.00
MG A:CL0801 0.0 20.8 1.0
NE2 A:HIS676 2.0 13.3 1.0
ND A:CL0801 2.0 20.8 1.0
NB A:CL0801 2.0 20.8 1.0
NC A:CL0801 2.1 20.8 1.0
NA A:CL0801 2.1 20.8 1.0
CE1 A:HIS676 2.9 13.3 1.0
C4D A:CL0801 3.0 20.8 1.0
C4A A:CL0801 3.0 20.8 1.0
C1C A:CL0801 3.0 20.8 1.0
C1B A:CL0801 3.0 20.8 1.0
CD2 A:HIS676 3.0 13.3 1.0
C4B A:CL0801 3.0 20.8 1.0
C1A A:CL0801 3.1 20.8 1.0
C4C A:CL0801 3.1 20.8 1.0
C1D A:CL0801 3.3 20.8 1.0
CHB A:CL0801 3.4 20.8 1.0
CHC A:CL0801 3.4 20.8 1.0
CHA A:CL0801 3.5 20.8 1.0
CHD A:CL0801 3.7 20.8 1.0
ND1 A:HIS676 4.1 13.3 1.0
CAB B:CLA802 4.1 12.7 1.0
CG A:HIS676 4.1 13.3 1.0
C3D A:CL0801 4.2 20.8 1.0
C3B B:CLA802 4.3 12.7 1.0
C3A A:CL0801 4.3 20.8 1.0
C2B A:CL0801 4.4 20.8 1.0
C3B A:CL0801 4.4 20.8 1.0
C2C A:CL0801 4.4 20.8 1.0
C2A A:CL0801 4.4 20.8 1.0
C3C A:CL0801 4.4 20.8 1.0
C2D A:CL0801 4.5 20.8 1.0
C4B B:CLA802 4.5 12.7 1.0
CHC B:CLA802 4.5 12.7 1.0
CMA A:CL0801 4.8 20.8 1.0
CZ A:PHE672 4.9 8.0 1.0
CBB B:CLA802 4.9 12.7 1.0
CBD A:CL0801 4.9 20.8 1.0

Magnesium binding site 2 out of 239 in 6jo5

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Magnesium binding site 2 out of 239 in the Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg802

b:10.6
occ:1.00
MG A:CLA802 0.0 10.6 1.0
ND A:CLA802 2.0 10.6 1.0
NB A:CLA802 2.0 10.6 1.0
NC A:CLA802 2.1 10.6 1.0
NA A:CLA802 2.1 10.6 1.0
SD A:MET684 2.5 5.7 1.0
C4D A:CLA802 3.0 10.6 1.0
C1C A:CLA802 3.0 10.6 1.0
C4B A:CLA802 3.0 10.6 1.0
C4A A:CLA802 3.0 10.6 1.0
C1B A:CLA802 3.0 10.6 1.0
C1A A:CLA802 3.0 10.6 1.0
C4C A:CLA802 3.1 10.6 1.0
C1D A:CLA802 3.3 10.6 1.0
CZ2 B:TRP583 3.3 7.7 1.0
CHC A:CLA802 3.4 10.6 1.0
CHB A:CLA802 3.4 10.6 1.0
CHA A:CLA802 3.4 10.6 1.0
CG A:MET684 3.6 5.7 1.0
CE A:MET684 3.6 5.7 1.0
CHD A:CLA802 3.7 10.6 1.0
CE2 B:TRP583 4.0 7.7 1.0
CB A:MET684 4.0 5.7 1.0
NE1 B:TRP583 4.1 7.7 1.0
C3D A:CLA802 4.3 10.6 1.0
CH2 B:TRP583 4.3 7.7 1.0
C3B A:CLA802 4.3 10.6 1.0
C2C A:CLA802 4.4 10.6 1.0
C2B A:CLA802 4.4 10.6 1.0
C3A A:CLA802 4.4 10.6 1.0
C2A A:CLA802 4.4 10.6 1.0
C3C A:CLA802 4.4 10.6 1.0
C2D A:CLA802 4.5 10.6 1.0
CBD A:CLA802 4.9 10.6 1.0

Magnesium binding site 3 out of 239 in 6jo5

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Magnesium binding site 3 out of 239 in the Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg803

b:8.1
occ:1.00
MG A:CLA803 0.0 8.1 1.0
NB A:CLA803 2.0 8.1 1.0
ND A:CLA803 2.0 8.1 1.0
NC A:CLA803 2.1 8.1 1.0
NA A:CLA803 2.1 8.1 1.0
C4D A:CLA803 2.9 8.1 1.0
C4B A:CLA803 3.0 8.1 1.0
C1B A:CLA803 3.0 8.1 1.0
C1C A:CLA803 3.0 8.1 1.0
C4A A:CLA803 3.0 8.1 1.0
C1A A:CLA803 3.1 8.1 1.0
C4C A:CLA803 3.1 8.1 1.0
C1D A:CLA803 3.2 8.1 1.0
CHC A:CLA803 3.4 8.1 1.0
CHB A:CLA803 3.4 8.1 1.0
CHA A:CLA803 3.4 8.1 1.0
CAB B:CLA803 3.4 11.0 1.0
CBB B:CLA803 3.7 11.0 1.0
CHD A:CLA803 3.7 8.1 1.0
C3B A:CLA803 4.2 8.1 1.0
C3D A:CLA803 4.2 8.1 1.0
C2B A:CLA803 4.2 8.1 1.0
CB B:ALA659 4.3 5.1 1.0
C3B B:CLA803 4.3 11.0 1.0
C2C A:CLA803 4.3 8.1 1.0
C3A A:CLA803 4.4 8.1 1.0
C2A A:CLA803 4.4 8.1 1.0
C3C A:CLA803 4.4 8.1 1.0
C2D A:CLA803 4.4 8.1 1.0
OD1 A:ASN601 4.7 9.9 1.0
CHC B:CLA803 4.8 11.0 1.0
CBD A:CLA803 4.8 8.1 1.0
C4B B:CLA803 4.9 11.0 1.0
C2 A:CL0801 5.0 20.8 1.0

Magnesium binding site 4 out of 239 in 6jo5

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Magnesium binding site 4 out of 239 in the Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg804

b:14.5
occ:1.00
MG A:CLA804 0.0 14.5 1.0
NE2 A:HIS53 2.0 10.9 1.0
ND A:CLA804 2.0 14.5 1.0
NB A:CLA804 2.0 14.5 1.0
NC A:CLA804 2.1 14.5 1.0
NA A:CLA804 2.1 14.5 1.0
CD2 A:HIS53 3.0 10.9 1.0
C4D A:CLA804 3.0 14.5 1.0
C1C A:CLA804 3.0 14.5 1.0
C4A A:CLA804 3.0 14.5 1.0
C1B A:CLA804 3.0 14.5 1.0
CE1 A:HIS53 3.0 10.9 1.0
C1A A:CLA804 3.0 14.5 1.0
C4B A:CLA804 3.1 14.5 1.0
C4C A:CLA804 3.1 14.5 1.0
C1D A:CLA804 3.3 14.5 1.0
CHB A:CLA804 3.4 14.5 1.0
CHC A:CLA804 3.4 14.5 1.0
CHA A:CLA804 3.5 14.5 1.0
CHD A:CLA804 3.7 14.5 1.0
CG J:PRO12 3.9 11.7 1.0
CG A:HIS53 4.1 10.9 1.0
ND1 A:HIS53 4.1 10.9 1.0
CB J:PRO12 4.2 11.7 1.0
C3D A:CLA804 4.3 14.5 1.0
C2C A:CLA804 4.3 14.5 1.0
C3A A:CLA804 4.4 14.5 1.0
C2A A:CLA804 4.4 14.5 1.0
C2B A:CLA804 4.4 14.5 1.0
C3B A:CLA804 4.4 14.5 1.0
C3C A:CLA804 4.4 14.5 1.0
C2D A:CLA804 4.5 14.5 1.0
C29 A:BCR856 4.6 13.9 1.0
CD J:PRO12 4.8 11.7 1.0
CAA A:CLA804 4.9 14.5 1.0
CBD A:CLA804 4.9 14.5 1.0

Magnesium binding site 5 out of 239 in 6jo5

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Magnesium binding site 5 out of 239 in the Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg805

b:20.8
occ:1.00
MG A:CLA805 0.0 20.8 1.0
ND A:CLA805 2.0 20.8 1.0
NB A:CLA805 2.0 20.8 1.0
NC A:CLA805 2.1 20.8 1.0
NA A:CLA805 2.1 20.8 1.0
NE2 A:HIS57 2.1 15.8 1.0
CE1 A:HIS57 2.9 15.8 1.0
C4D A:CLA805 3.0 20.8 1.0
C1C A:CLA805 3.0 20.8 1.0
C4B A:CLA805 3.0 20.8 1.0
C4A A:CLA805 3.0 20.8 1.0
C1B A:CLA805 3.0 20.8 1.0
C1A A:CLA805 3.0 20.8 1.0
C4C A:CLA805 3.1 20.8 1.0
C1D A:CLA805 3.3 20.8 1.0
CD2 A:HIS57 3.3 15.8 1.0
CHC A:CLA805 3.4 20.8 1.0
CHB A:CLA805 3.4 20.8 1.0
CHA A:CLA805 3.4 20.8 1.0
CHD A:CLA805 3.7 20.8 1.0
C7 A:CLA812 4.0 15.5 1.0
ND1 A:HIS57 4.1 15.8 1.0
C3D A:CLA805 4.3 20.8 1.0
CG A:HIS57 4.3 15.8 1.0
C2C A:CLA805 4.3 20.8 1.0
C3B A:CLA805 4.3 20.8 1.0
C2B A:CLA805 4.4 20.8 1.0
C2A A:CLA805 4.4 20.8 1.0
C3A A:CLA805 4.4 20.8 1.0
C3C A:CLA805 4.4 20.8 1.0
CBB A:CLA804 4.4 14.5 1.0
C2D A:CLA805 4.5 20.8 1.0
CBB A:CLA806 4.9 12.2 1.0
CBD A:CLA805 4.9 20.8 1.0
C8 A:CLA812 4.9 15.5 1.0
C5 A:CLA812 4.9 15.5 1.0
C9 A:CLA812 5.0 15.5 1.0

Magnesium binding site 6 out of 239 in 6jo5

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Magnesium binding site 6 out of 239 in the Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg806

b:12.2
occ:1.00
MG A:CLA806 0.0 12.2 1.0
NE2 A:HIS77 1.9 7.3 1.0
ND A:CLA806 2.0 12.2 1.0
NB A:CLA806 2.0 12.2 1.0
NC A:CLA806 2.1 12.2 1.0
NA A:CLA806 2.1 12.2 1.0
CD2 A:HIS77 2.7 7.3 1.0
C4D A:CLA806 3.0 12.2 1.0
C1C A:CLA806 3.0 12.2 1.0
C4A A:CLA806 3.0 12.2 1.0
C4B A:CLA806 3.0 12.2 1.0
C1B A:CLA806 3.0 12.2 1.0
CE1 A:HIS77 3.0 7.3 1.0
C1A A:CLA806 3.1 12.2 1.0
C4C A:CLA806 3.1 12.2 1.0
C1D A:CLA806 3.3 12.2 1.0
CHB A:CLA806 3.4 12.2 1.0
CHC A:CLA806 3.4 12.2 1.0
CMB A:CLA831 3.4 20.8 1.0
CHA A:CLA806 3.5 12.2 1.0
CHD A:CLA806 3.7 12.2 1.0
CG A:HIS77 3.9 7.3 1.0
ND1 A:HIS77 4.0 7.3 1.0
C3D A:CLA806 4.3 12.2 1.0
C2C A:CLA806 4.3 12.2 1.0
C3B A:CLA806 4.4 12.2 1.0
C2B A:CLA806 4.4 12.2 1.0
C3A A:CLA806 4.4 12.2 1.0
C2A A:CLA806 4.4 12.2 1.0
C3C A:CLA806 4.4 12.2 1.0
C2D A:CLA806 4.5 12.2 1.0
C2B A:CLA831 4.8 20.8 1.0
CBD A:CLA806 4.9 12.2 1.0
O A:VAL73 5.0 7.4 1.0

Magnesium binding site 7 out of 239 in 6jo5

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Magnesium binding site 7 out of 239 in the Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg807

b:17.8
occ:1.00
MG A:CLA807 0.0 17.8 1.0
ND A:CLA807 2.0 17.8 1.0
NB A:CLA807 2.0 17.8 1.0
NC A:CLA807 2.1 17.8 1.0
NA A:CLA807 2.1 17.8 1.0
OE1 A:GLN80 2.2 9.7 1.0
C4D A:CLA807 3.0 17.8 1.0
C1C A:CLA807 3.0 17.8 1.0
C4A A:CLA807 3.0 17.8 1.0
C4B A:CLA807 3.0 17.8 1.0
C1B A:CLA807 3.0 17.8 1.0
C1A A:CLA807 3.1 17.8 1.0
CD A:GLN80 3.1 9.7 1.0
C4C A:CLA807 3.1 17.8 1.0
C1D A:CLA807 3.3 17.8 1.0
CHB A:CLA807 3.4 17.8 1.0
CHC A:CLA807 3.4 17.8 1.0
CHA A:CLA807 3.5 17.8 1.0
NE2 A:GLN80 3.5 9.7 1.0
C17 A:CLA807 3.5 17.8 1.0
C16 A:CLA807 3.6 17.8 1.0
CHD A:CLA807 3.7 17.8 1.0
C3D A:CLA807 4.3 17.8 1.0
C3B A:CLA807 4.4 17.8 1.0
C2C A:CLA807 4.4 17.8 1.0
C2B A:CLA807 4.4 17.8 1.0
C3A A:CLA807 4.4 17.8 1.0
C2A A:CLA807 4.4 17.8 1.0
C3C A:CLA807 4.4 17.8 1.0
CG A:GLN80 4.5 9.7 1.0
C2D A:CLA807 4.5 17.8 1.0
CMA A:CLA806 4.6 12.2 1.0
C18 A:CLA807 4.7 17.8 1.0
C19 A:CLA807 4.9 17.8 1.0
CBD A:CLA807 4.9 17.8 1.0

Magnesium binding site 8 out of 239 in 6jo5

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Magnesium binding site 8 out of 239 in the Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg808

b:10.9
occ:1.00
MG A:CLA808 0.0 10.9 1.0
ND A:CLA808 2.0 10.9 1.0
NB A:CLA808 2.0 10.9 1.0
NC A:CLA808 2.1 10.9 1.0
NA A:CLA808 2.1 10.9 1.0
NE2 A:HIS94 2.3 9.4 1.0
C4D A:CLA808 3.0 10.9 1.0
C1C A:CLA808 3.0 10.9 1.0
C4A A:CLA808 3.0 10.9 1.0
C1B A:CLA808 3.0 10.9 1.0
C4B A:CLA808 3.0 10.9 1.0
CE1 A:HIS94 3.1 9.4 1.0
C1A A:CLA808 3.1 10.9 1.0
C4C A:CLA808 3.1 10.9 1.0
C1D A:CLA808 3.3 10.9 1.0
CHC A:CLA808 3.4 10.9 1.0
CD2 A:HIS94 3.4 9.4 1.0
CHB A:CLA808 3.4 10.9 1.0
CHA A:CLA808 3.5 10.9 1.0
CHD A:CLA808 3.7 10.9 1.0
C3D A:CLA808 4.3 10.9 1.0
ND1 A:HIS94 4.3 9.4 1.0
C2B A:CLA808 4.4 10.9 1.0
C2C A:CLA808 4.4 10.9 1.0
C3B A:CLA808 4.4 10.9 1.0
C3A A:CLA808 4.4 10.9 1.0
C2A A:CLA808 4.4 10.9 1.0
C3C A:CLA808 4.4 10.9 1.0
CG A:HIS94 4.4 9.4 1.0
C2D A:CLA808 4.5 10.9 1.0
CBD A:CLA808 4.9 10.9 1.0

Magnesium binding site 9 out of 239 in 6jo5

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Magnesium binding site 9 out of 239 in the Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg809

b:11.4
occ:1.00
MG A:CLA809 0.0 11.4 1.0
ND A:CLA809 2.0 11.4 1.0
NB A:CLA809 2.0 11.4 1.0
NC A:CLA809 2.1 11.4 1.0
NA A:CLA809 2.1 11.4 1.0
OE1 A:GLN116 2.4 10.1 1.0
C4D A:CLA809 3.0 11.4 1.0
C1C A:CLA809 3.0 11.4 1.0
C4A A:CLA809 3.0 11.4 1.0
C1B A:CLA809 3.0 11.4 1.0
C4B A:CLA809 3.0 11.4 1.0
C1A A:CLA809 3.1 11.4 1.0
C4C A:CLA809 3.1 11.4 1.0
CD A:GLN116 3.1 10.1 1.0
NE2 A:GLN116 3.2 10.1 1.0
C1D A:CLA809 3.3 11.4 1.0
CHB A:CLA809 3.4 11.4 1.0
CHC A:CLA809 3.4 11.4 1.0
CHA A:CLA809 3.5 11.4 1.0
CHD A:CLA809 3.7 11.4 1.0
C7 A:CLA829 4.3 8.1 1.0
C3D A:CLA809 4.3 11.4 1.0
C2C A:CLA809 4.4 11.4 1.0
C3B A:CLA809 4.4 11.4 1.0
C2B A:CLA809 4.4 11.4 1.0
C3A A:CLA809 4.4 11.4 1.0
C2A A:CLA809 4.4 11.4 1.0
C3C A:CLA809 4.4 11.4 1.0
C2 A:CLA829 4.4 8.1 1.0
C6 A:CLA829 4.5 8.1 1.0
C2D A:CLA809 4.5 11.4 1.0
CG A:GLN116 4.6 10.1 1.0
C1 A:CLA829 4.8 8.1 1.0
CBD A:CLA809 5.0 11.4 1.0

Magnesium binding site 10 out of 239 in 6jo5

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Magnesium binding site 10 out of 239 in the Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg810

b:10.7
occ:1.00
MG A:CLA810 0.0 10.7 1.0
ND A:CLA810 2.0 10.7 1.0
NB A:CLA810 2.0 10.7 1.0
NC A:CLA810 2.1 10.7 1.0
NA A:CLA810 2.1 10.7 1.0
OE1 A:GLN124 2.3 10.2 1.0
C4D A:CLA810 3.0 10.7 1.0
C1C A:CLA810 3.0 10.7 1.0
C1B A:CLA810 3.0 10.7 1.0
C4B A:CLA810 3.0 10.7 1.0
C4A A:CLA810 3.0 10.7 1.0
C1A A:CLA810 3.1 10.7 1.0
C4C A:CLA810 3.2 10.7 1.0
CD A:GLN124 3.2 10.2 1.0
C1D A:CLA810 3.2 10.7 1.0
CHB A:CLA810 3.4 10.7 1.0
CHC A:CLA810 3.4 10.7 1.0
CHA A:CLA810 3.5 10.7 1.0
C20 A:CLA829 3.5 8.1 1.0
NE2 A:GLN124 3.6 10.2 1.0
CHD A:CLA810 3.7 10.7 1.0
C18 A:CLA829 4.1 8.1 1.0
C3D A:CLA810 4.2 10.7 1.0
C3B A:CLA810 4.3 10.7 1.0
C2B A:CLA810 4.3 10.7 1.0
C2C A:CLA810 4.4 10.7 1.0
C3A A:CLA810 4.4 10.7 1.0
C2A A:CLA810 4.4 10.7 1.0
C3C A:CLA810 4.4 10.7 1.0
C2D A:CLA810 4.5 10.7 1.0
CG A:GLN124 4.5 10.2 1.0
C19 A:CLA829 4.6 8.1 1.0
CB A:GLN124 4.7 10.2 1.0
CBD A:CLA810 4.9 10.7 1.0

Reference:

M.Suga, S.I.Ozawa, K.Yoshida-Motomura, F.Akita, N.Miyazaki, Y.Takahashi. Structure of the Green Algal Photosystem I Supercomplex with A Decameric Light-Harvesting Complex I. Nat.Plants V. 5 626 2019.
ISSN: ESSN 2055-0278
PubMed: 31182847
DOI: 10.1038/S41477-019-0438-4
Page generated: Mon Dec 14 23:02:38 2020

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