Magnesium in PDB 7dxa: Psii Intermediate PSB28-RC47

Other elements in 7dxa:

The structure of Psii Intermediate PSB28-RC47 also contains other interesting chemical elements:

Iron (Fe) 2 atoms
Chlorine (Cl) 1 atom

Magnesium Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 22;

Binding sites:

The binding sites of Magnesium atom in the Psii Intermediate PSB28-RC47 (pdb code 7dxa). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 22 binding sites of Magnesium where determined in the Psii Intermediate PSB28-RC47, PDB code: 7dxa:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 22 in 7dxa

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Magnesium binding site 1 out of 22 in the Psii Intermediate PSB28-RC47


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Psii Intermediate PSB28-RC47 within 5.0Å range:
probe atom residue distance (Å) B Occ
a:Mg402

b:21.1
occ:1.00
MG a:CLA402 0.0 21.1 1.0
NB a:CLA402 2.0 20.2 1.0
ND a:CLA402 2.0 20.4 1.0
NC a:CLA402 2.1 22.5 1.0
NA a:CLA402 2.2 21.8 1.0
NE2 a:HIS198 2.4 24.4 1.0
C4D a:CLA402 2.9 19.6 1.0
C4B a:CLA402 3.0 20.1 1.0
C1B a:CLA402 3.0 21.6 1.0
C1C a:CLA402 3.1 19.6 1.0
C4C a:CLA402 3.1 19.8 1.0
C4A a:CLA402 3.1 22.9 1.0
CE1 a:HIS198 3.1 24.4 1.0
C1D a:CLA402 3.2 21.1 1.0
C1A a:CLA402 3.2 21.5 1.0
CHB a:CLA402 3.4 20.4 1.0
CHC a:CLA402 3.4 20.3 1.0
CHA a:CLA402 3.5 19.5 1.0
CD2 a:HIS198 3.5 24.4 1.0
CHD a:CLA402 3.6 18.8 1.0
CBB d:CLA404 4.2 22.5 1.0
C3D a:CLA402 4.2 19.2 1.0
C3B a:CLA402 4.2 18.3 1.0
C2B a:CLA402 4.3 19.6 1.0
ND1 a:HIS198 4.4 24.4 1.0
C2C a:CLA402 4.4 20.9 1.0
C3C a:CLA402 4.4 20.0 1.0
C2D a:CLA402 4.4 19.1 1.0
C3A a:CLA402 4.5 21.5 1.0
C2A a:CLA402 4.5 21.5 1.0
CG a:HIS198 4.6 24.4 1.0
CG2 a:VAL202 4.9 21.3 1.0
CBD a:CLA402 5.0 20.8 1.0

Magnesium binding site 2 out of 22 in 7dxa

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Magnesium binding site 2 out of 22 in the Psii Intermediate PSB28-RC47


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Psii Intermediate PSB28-RC47 within 5.0Å range:
probe atom residue distance (Å) B Occ
a:Mg403

b:21.6
occ:1.00
MG a:CLA403 0.0 21.6 1.0
NA a:CLA403 2.0 21.6 1.0
ND a:CLA403 2.1 21.6 1.0
NB a:CLA403 2.1 21.6 1.0
NC a:CLA403 2.1 21.6 1.0
C4D a:CLA403 2.9 21.6 1.0
C1A a:CLA403 3.0 21.6 1.0
C4A a:CLA403 3.0 21.6 1.0
C1B a:CLA403 3.1 21.6 1.0
C1D a:CLA403 3.1 21.6 1.0
C1C a:CLA403 3.1 21.6 1.0
C4B a:CLA403 3.1 21.6 1.0
C4C a:CLA403 3.2 21.6 1.0
CHA a:CLA403 3.4 21.6 1.0
CHB a:CLA403 3.5 21.6 1.0
CHC a:CLA403 3.5 21.6 1.0
CHD a:CLA403 3.7 21.6 1.0
C3D a:CLA403 4.0 21.6 1.0
CG2 d:ILE178 4.0 20.5 1.0
C2D a:CLA403 4.3 21.6 1.0
C3A a:CLA403 4.3 21.6 1.0
C2A a:CLA403 4.4 21.6 1.0
C3B a:CLA403 4.4 21.6 1.0
C2B a:CLA403 4.5 21.6 1.0
C2C a:CLA403 4.5 21.6 1.0
C3C a:CLA403 4.5 21.6 1.0
CG1 d:ILE178 4.5 20.5 1.0
C20 a:PHO405 4.6 21.9 1.0
CD1 d:ILE178 4.6 20.5 1.0
CB d:ILE178 4.6 20.5 1.0
C19 a:PHO405 4.7 21.9 1.0
CBB a:PHO405 4.7 21.9 1.0
CBD a:CLA403 4.7 21.6 1.0
C18 a:PHO405 4.8 21.9 1.0
CMA a:CLA403 4.9 21.6 1.0
CAD a:CLA403 5.0 21.6 1.0

Magnesium binding site 3 out of 22 in 7dxa

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Magnesium binding site 3 out of 22 in the Psii Intermediate PSB28-RC47


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Psii Intermediate PSB28-RC47 within 5.0Å range:
probe atom residue distance (Å) B Occ
a:Mg406

b:48.6
occ:1.00
MG a:CLA406 0.0 48.6 1.0
NA a:CLA406 2.0 48.6 1.0
NB a:CLA406 2.1 48.6 1.0
ND a:CLA406 2.1 48.6 1.0
NC a:CLA406 2.1 48.6 1.0
C4D a:CLA406 2.9 48.6 1.0
C4A a:CLA406 3.0 48.6 1.0
C1A a:CLA406 3.1 48.6 1.0
C1B a:CLA406 3.1 48.6 1.0
NE2 a:HIS118 3.1 38.6 1.0
C1C a:CLA406 3.1 48.6 1.0
C4B a:CLA406 3.1 48.6 1.0
C1D a:CLA406 3.2 48.6 1.0
C4C a:CLA406 3.2 48.6 1.0
CE1 a:HIS118 3.2 38.6 1.0
CHB a:CLA406 3.4 48.6 1.0
CHC a:CLA406 3.5 48.6 1.0
CHA a:CLA406 3.5 48.6 1.0
CD2 a:HIS118 3.6 38.6 1.0
CHD a:CLA406 3.7 48.6 1.0
ND1 a:HIS118 3.8 38.6 1.0
CG a:HIS118 4.0 38.6 1.0
C3D a:CLA406 4.1 48.6 1.0
C3A a:CLA406 4.3 48.6 1.0
C2D a:CLA406 4.3 48.6 1.0
C2A a:CLA406 4.4 48.6 1.0
C2B a:CLA406 4.4 48.6 1.0
C3B a:CLA406 4.4 48.6 1.0
C2C a:CLA406 4.5 48.6 1.0
C3C a:CLA406 4.5 48.6 1.0
CG2 i:VAL12 4.6 53.7 1.0
CMA a:CLA406 4.8 48.6 1.0
CBD a:CLA406 4.9 48.6 1.0

Magnesium binding site 4 out of 22 in 7dxa

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Magnesium binding site 4 out of 22 in the Psii Intermediate PSB28-RC47


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Psii Intermediate PSB28-RC47 within 5.0Å range:
probe atom residue distance (Å) B Occ
b:Mg601

b:34.0
occ:1.00
MG b:CLA601 0.0 34.0 1.0
NA b:CLA601 2.0 34.0 1.0
ND b:CLA601 2.1 34.0 1.0
NB b:CLA601 2.1 34.0 1.0
NC b:CLA601 2.1 34.0 1.0
C4D b:CLA601 2.9 34.0 1.0
C4A b:CLA601 3.0 34.0 1.0
C1A b:CLA601 3.0 34.0 1.0
C1B b:CLA601 3.0 34.0 1.0
C1D b:CLA601 3.0 34.0 1.0
C4C b:CLA601 3.1 34.0 1.0
C1C b:CLA601 3.1 34.0 1.0
C4B b:CLA601 3.2 34.0 1.0
CHB b:CLA601 3.2 34.0 1.0
CHA b:CLA601 3.4 34.0 1.0
CHD b:CLA601 3.5 34.0 1.0
CHC b:CLA601 3.6 34.0 1.0
N b:GLY186 3.8 33.0 1.0
C3D b:CLA601 4.0 34.0 1.0
C2D b:CLA601 4.2 34.0 1.0
C2A b:CLA601 4.3 34.0 1.0
C3A b:CLA601 4.3 34.0 1.0
CA b:GLY186 4.3 33.0 1.0
C2B b:CLA601 4.4 34.0 1.0
C3B b:CLA601 4.4 34.0 1.0
C2C b:CLA601 4.5 34.0 1.0
C3C b:CLA601 4.5 34.0 1.0
CBB b:CLA602 4.6 30.9 1.0
O b:GLY186 4.7 33.0 1.0
C b:GLY186 4.8 33.0 1.0
CBD b:CLA601 4.8 34.0 1.0
CAA b:CLA601 4.8 34.0 1.0
C b:TRP185 4.8 29.3 1.0
CB b:TRP185 4.9 29.3 1.0

Magnesium binding site 5 out of 22 in 7dxa

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Magnesium binding site 5 out of 22 in the Psii Intermediate PSB28-RC47


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Psii Intermediate PSB28-RC47 within 5.0Å range:
probe atom residue distance (Å) B Occ
b:Mg602

b:31.9
occ:1.00
MG b:CLA602 0.0 31.9 1.0
ND b:CLA602 2.1 27.9 1.0
NA b:CLA602 2.1 28.9 1.0
NB b:CLA602 2.1 30.5 1.0
NC b:CLA602 2.2 33.3 1.0
C4D b:CLA602 2.9 27.7 1.0
C1A b:CLA602 3.0 28.3 1.0
C4A b:CLA602 3.1 28.1 1.0
C4B b:CLA602 3.1 30.0 1.0
C1B b:CLA602 3.1 27.9 1.0
C1D b:CLA602 3.2 28.1 1.0
C4C b:CLA602 3.2 30.4 1.0
C1C b:CLA602 3.2 32.1 1.0
ND1 b:HIS201 3.2 22.8 1.0
CG b:HIS201 3.4 22.8 1.0
CHA b:CLA602 3.4 28.6 1.0
CHB b:CLA602 3.5 27.8 1.0
CE1 b:HIS201 3.5 22.8 1.0
CHC b:CLA602 3.5 29.2 1.0
CHD b:CLA602 3.7 28.7 1.0
CD2 b:HIS201 3.7 22.8 1.0
NE2 b:HIS201 3.7 22.8 1.0
CB b:HIS201 3.9 22.8 1.0
C3D b:CLA602 4.2 24.7 1.0
CZ h:PHE41 4.2 25.1 1.0
C2A b:CLA602 4.4 28.9 1.0
C2D b:CLA602 4.4 25.2 1.0
C3A b:CLA602 4.4 27.9 1.0
C3B b:CLA602 4.4 29.2 1.0
C2B b:CLA602 4.4 30.4 1.0
C3C b:CLA602 4.5 29.4 1.0
C2C b:CLA602 4.5 29.7 1.0
CA b:HIS201 4.6 22.8 1.0
CE2 h:PHE41 4.6 25.1 1.0
CBD b:CLA602 4.9 26.7 1.0
CMA b:CLA602 4.9 27.4 1.0

Magnesium binding site 6 out of 22 in 7dxa

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Magnesium binding site 6 out of 22 in the Psii Intermediate PSB28-RC47


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Psii Intermediate PSB28-RC47 within 5.0Å range:
probe atom residue distance (Å) B Occ
b:Mg603

b:25.7
occ:1.00
MG b:CLA603 0.0 25.7 1.0
NC b:CLA603 2.0 26.3 1.0
NB b:CLA603 2.0 25.6 1.0
ND b:CLA603 2.1 27.1 1.0
NA b:CLA603 2.2 27.6 1.0
C4D b:CLA603 3.0 24.6 1.0
C4B b:CLA603 3.0 24.0 1.0
C4C b:CLA603 3.0 25.7 1.0
C1C b:CLA603 3.1 25.0 1.0
C1B b:CLA603 3.1 24.0 1.0
C4A b:CLA603 3.2 30.4 1.0
C1A b:CLA603 3.2 25.2 1.0
C1D b:CLA603 3.2 25.1 1.0
CHC b:CLA603 3.4 24.6 1.0
CHB b:CLA603 3.5 27.7 1.0
CHD b:CLA603 3.5 24.7 1.0
CHA b:CLA603 3.6 24.8 1.0
CE1 b:HIS202 3.7 22.9 1.0
NE2 b:HIS202 3.7 22.9 1.0
ND1 b:HIS202 4.2 22.9 1.0
C3D b:CLA603 4.3 26.7 1.0
C3C b:CLA603 4.3 24.9 1.0
C3B b:CLA603 4.3 25.3 1.0
C2C b:CLA603 4.3 26.5 1.0
C2B b:CLA603 4.4 23.5 1.0
CD2 b:HIS202 4.4 22.9 1.0
C2D b:CLA603 4.4 24.8 1.0
C3A b:CLA603 4.5 26.9 1.0
C2A b:CLA603 4.5 26.1 1.0
C6 b:CLA605 4.6 31.6 1.0
CG b:HIS202 4.7 22.9 1.0
C4 b:CLA605 4.7 29.4 1.0
C5 b:CLA605 4.7 31.2 1.0
C7 b:CLA605 4.8 33.0 1.0
CBA b:CLA603 4.9 21.8 1.0
C9 b:CLA605 4.9 33.5 1.0
NE2 b:HIS201 5.0 22.8 1.0
CBD b:CLA603 5.0 25.6 1.0

Magnesium binding site 7 out of 22 in 7dxa

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Magnesium binding site 7 out of 22 in the Psii Intermediate PSB28-RC47


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Psii Intermediate PSB28-RC47 within 5.0Å range:
probe atom residue distance (Å) B Occ
b:Mg604

b:25.4
occ:1.00
MG b:CLA604 0.0 25.4 1.0
ND b:CLA604 2.0 24.9 1.0
NB b:CLA604 2.1 23.6 1.0
NC b:CLA604 2.1 23.6 1.0
NA b:CLA604 2.3 25.6 1.0
C4D b:CLA604 2.9 24.4 1.0
C1D b:CLA604 3.1 26.9 1.0
C4B b:CLA604 3.1 23.6 1.0
C4C b:CLA604 3.1 26.0 1.0
C1B b:CLA604 3.1 24.9 1.0
C1C b:CLA604 3.2 24.9 1.0
C4A b:CLA604 3.2 24.6 1.0
C1A b:CLA604 3.2 24.8 1.0
CHB b:CLA604 3.5 25.4 1.0
CE1 b:HIS455 3.5 17.9 1.0
CHD b:CLA604 3.5 24.8 1.0
CHC b:CLA604 3.5 20.9 1.0
CHA b:CLA604 3.6 23.7 1.0
NE2 b:HIS455 3.6 17.9 1.0
ND1 b:HIS455 3.9 17.9 1.0
C14 b:CLA612 4.0 29.9 1.0
CD2 b:HIS455 4.1 17.9 1.0
C3D b:CLA604 4.2 24.2 1.0
CG b:HIS455 4.3 17.9 1.0
C2D b:CLA604 4.3 24.4 1.0
C3B b:CLA604 4.4 22.6 1.0
C2B b:CLA604 4.4 22.4 1.0
C3C b:CLA604 4.5 26.1 1.0
C2C b:CLA604 4.5 23.3 1.0
C3A b:CLA604 4.5 26.6 1.0
C2A b:CLA604 4.6 24.2 1.0
C13 b:CLA612 4.7 31.8 1.0
C15 b:CLA612 4.8 30.6 1.0
CE2 b:PHE451 5.0 18.6 1.0
CBD b:CLA604 5.0 25.3 1.0

Magnesium binding site 8 out of 22 in 7dxa

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Magnesium binding site 8 out of 22 in the Psii Intermediate PSB28-RC47


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Psii Intermediate PSB28-RC47 within 5.0Å range:
probe atom residue distance (Å) B Occ
b:Mg605

b:24.2
occ:1.00
MG b:CLA605 0.0 24.2 1.0
ND b:CLA605 2.1 23.8 1.0
NC b:CLA605 2.1 24.6 1.0
NB b:CLA605 2.1 24.2 1.0
NA b:CLA605 2.2 23.3 1.0
C4D b:CLA605 3.0 21.4 1.0
C4B b:CLA605 3.1 25.1 1.0
C4C b:CLA605 3.1 24.9 1.0
C1B b:CLA605 3.1 24.8 1.0
C1D b:CLA605 3.1 21.0 1.0
C4A b:CLA605 3.1 25.2 1.0
C1C b:CLA605 3.1 24.4 1.0
C1A b:CLA605 3.2 23.9 1.0
CHB b:CLA605 3.4 22.0 1.0
CHD b:CLA605 3.4 20.1 1.0
CHC b:CLA605 3.5 24.4 1.0
NE2 b:HIS100 3.6 23.3 1.0
CE1 b:HIS100 3.6 23.3 1.0
CHA b:CLA605 3.6 22.0 1.0
CD2 b:HIS100 4.1 23.3 1.0
ND1 b:HIS100 4.1 23.3 1.0
C1 b:CLA604 4.2 33.0 1.0
C3D b:CLA605 4.2 21.0 1.0
C2D b:CLA605 4.4 21.1 1.0
C3B b:CLA605 4.4 23.6 1.0
C3C b:CLA605 4.4 23.8 1.0
C2B b:CLA605 4.4 24.4 1.0
C2 b:CLA604 4.4 39.2 1.0
CG b:HIS100 4.4 23.3 1.0
C2C b:CLA605 4.4 25.2 1.0
C3A b:CLA605 4.4 22.4 1.0
C2A b:CLA605 4.6 26.5 1.0

Magnesium binding site 9 out of 22 in 7dxa

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Magnesium binding site 9 out of 22 in the Psii Intermediate PSB28-RC47


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Psii Intermediate PSB28-RC47 within 5.0Å range:
probe atom residue distance (Å) B Occ
b:Mg606

b:31.9
occ:1.00
MG b:CLA606 0.0 31.9 1.0
ND b:CLA606 2.1 33.1 1.0
NB b:CLA606 2.1 30.7 1.0
NC b:CLA606 2.2 30.8 1.0
NA b:CLA606 2.3 27.7 1.0
C4D b:CLA606 3.0 34.2 1.0
C1B b:CLA606 3.1 28.6 1.0
C4C b:CLA606 3.1 33.2 1.0
C4B b:CLA606 3.2 29.7 1.0
C4A b:CLA606 3.2 27.8 1.0
C1D b:CLA606 3.2 34.4 1.0
C1C b:CLA606 3.2 31.2 1.0
C1A b:CLA606 3.2 29.6 1.0
CHB b:CLA606 3.4 26.6 1.0
CG b:HIS157 3.4 23.9 1.0
CD2 b:HIS157 3.5 23.9 1.0
CHD b:CLA606 3.6 30.9 1.0
ND1 b:HIS157 3.6 23.9 1.0
CHC b:CLA606 3.6 30.5 1.0
CHA b:CLA606 3.6 32.7 1.0
NE2 b:HIS157 3.7 23.9 1.0
CE1 b:HIS157 3.8 23.9 1.0
CB b:HIS157 4.0 23.9 1.0
C3D b:CLA606 4.3 33.6 1.0
C2B b:CLA606 4.4 28.6 1.0
C3B b:CLA606 4.4 29.6 1.0
C2D b:CLA606 4.5 35.0 1.0
C3C b:CLA606 4.5 31.4 1.0
C3A b:CLA606 4.5 25.8 1.0
C2C b:CLA606 4.5 32.1 1.0
C2A b:CLA606 4.6 26.3 1.0
CA b:HIS157 5.0 23.9 1.0
CD1 b:PHE153 5.0 22.2 1.0

Magnesium binding site 10 out of 22 in 7dxa

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Magnesium binding site 10 out of 22 in the Psii Intermediate PSB28-RC47


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of Psii Intermediate PSB28-RC47 within 5.0Å range:
probe atom residue distance (Å) B Occ
b:Mg607

b:22.4
occ:1.00
MG b:CLA607 0.0 22.4 1.0
ND b:CLA607 2.1 23.4 1.0
NB b:CLA607 2.1 21.5 1.0
NC b:CLA607 2.2 23.8 1.0
NA b:CLA607 2.2 22.2 1.0
C4D b:CLA607 3.0 22.2 1.0
C1B b:CLA607 3.1 22.1 1.0
C4B b:CLA607 3.2 22.2 1.0
C4A b:CLA607 3.2 21.1 1.0
C4C b:CLA607 3.2 23.8 1.0
C1A b:CLA607 3.2 22.2 1.0
C1D b:CLA607 3.2 22.6 1.0
C1C b:CLA607 3.2 23.2 1.0
CHB b:CLA607 3.4 18.2 1.0
CHA b:CLA607 3.6 22.7 1.0
CHD b:CLA607 3.6 23.2 1.0
CHC b:CLA607 3.6 20.0 1.0
O1A b:MGE620 3.7 34.7 1.0
C3A b:MGE620 4.0 34.7 1.0
CE b:MET37 4.2 23.9 1.0
C3D b:CLA607 4.2 23.4 1.0
C2D b:CLA607 4.4 24.6 1.0
C2B b:CLA607 4.4 23.1 1.0
C3B b:CLA607 4.5 22.5 1.0
C3C b:CLA607 4.5 23.1 1.0
C2C b:CLA607 4.5 22.7 1.0
C3A b:CLA607 4.5 20.8 1.0
C2A b:CLA607 4.6 22.8 1.0
C1A b:MGE620 4.6 34.7 1.0
SD b:MET37 4.6 23.9 1.0
CD2 b:PHE61 4.7 24.1 1.0
CB b:PHE61 4.7 24.1 1.0
C2A b:MGE620 4.8 34.7 1.0
C5A b:MGE620 4.8 34.7 1.0
CG b:PHE61 4.9 24.1 1.0
CBA b:CLA607 5.0 23.2 1.0
C4A b:MGE620 5.0 34.7 1.0

Reference:

S.F.Sui, J.R.Shen, G.Y.Han, Y.N.Xiao, G.Q.Huang. Structure of Psii Intermediate PSB28-RC47 Complex at 3.14 Angstroms Resolution. To Be Published.
Page generated: Sun Jul 11 16:32:11 2021

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