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Manganese in PDB 7pi0: Unstacked Compact Dunaliella Psii

Enzymatic activity of Unstacked Compact Dunaliella Psii

All present enzymatic activity of Unstacked Compact Dunaliella Psii:
1.10.3.9;

Other elements in 7pi0:

The structure of Unstacked Compact Dunaliella Psii also contains other interesting chemical elements:

Calcium (Ca) 2 atoms
Iron (Fe) 4 atoms
Magnesium (Mg) 202 atoms
Sodium (Na) 2 atoms
Chlorine (Cl) 4 atoms

Manganese Binding Sites:

The binding sites of Manganese atom in the Unstacked Compact Dunaliella Psii (pdb code 7pi0). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 8 binding sites of Manganese where determined in the Unstacked Compact Dunaliella Psii, PDB code: 7pi0:
Jump to Manganese binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Manganese binding site 1 out of 8 in 7pi0

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Manganese binding site 1 out of 8 in the Unstacked Compact Dunaliella Psii


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Unstacked Compact Dunaliella Psii within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn401

b:73.7
occ:1.00
 MN1 A:OEX401 0.0 73.7 1.0
O3 A:OEX401 1.8 73.7 1.0
O1 A:OEX401 1.8 73.7 1.0
O5 A:OEX401 2.6 73.7 1.0
OE2 A:GLU189 2.6 37.9 1.0
OD2 A:ASP342 2.7 53.7 1.0
MN2 A:OEX401 2.7 73.7 1.0
NE2 A:HIS332 2.9 47.7 1.0
OD1 A:ASP342 3.0 53.7 1.0
CG A:ASP342 3.2 53.7 1.0
MN3 A:OEX401 3.3 73.7 1.0
CD A:GLU189 3.4 37.9 1.0
CA1 A:OEX401 3.5 73.7 1.0
CD2 A:HIS332 3.5 47.7 1.0
O2 A:OEX401 3.6 73.7 1.0
NE2 A:HIS337 3.6 52.5 1.0
OE1 A:GLU189 3.8 37.9 1.0
CE1 A:HIS332 4.0 47.7 1.0
CE1 A:HIS337 4.2 52.5 1.0
OE1 C:GLU342 4.3 49.5 1.0
CG A:GLU189 4.4 37.9 1.0
O A:ALA344 4.4 54.8 1.0
OE2 C:GLU342 4.5 49.5 1.0
CB A:ASP342 4.7 53.7 1.0
OE2 A:GLU333 4.8 52.6 1.0
CG A:HIS332 4.8 47.7 1.0
CD2 A:HIS337 4.8 52.5 1.0
CD C:GLU342 4.8 49.5 1.0
MN4 A:OEX401 4.9 73.7 1.0
CD A:GLU333 5.0 52.6 1.0
OE1 A:GLU333 5.0 52.6 1.0

Manganese binding site 2 out of 8 in 7pi0

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Manganese binding site 2 out of 8 in the Unstacked Compact Dunaliella Psii


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Unstacked Compact Dunaliella Psii within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn401

b:73.7
occ:1.00
 MN2 A:OEX401 0.0 73.7 1.0
O1 A:OEX401 2.0 73.7 1.0
O2 A:OEX401 2.1 73.7 1.0
O3 A:OEX401 2.1 73.7 1.0
OE1 C:GLU342 2.7 49.5 1.0
O A:ALA344 2.7 54.8 1.0
MN1 A:OEX401 2.7 73.7 1.0
MN3 A:OEX401 2.9 73.7 1.0
OXT A:ALA344 3.0 54.8 1.0
C A:ALA344 3.0 54.8 1.0
OD1 A:ASP342 3.0 53.7 1.0
CA1 A:OEX401 3.3 73.7 1.0
CD C:GLU342 3.4 49.5 1.0
OE2 C:GLU342 3.8 49.5 1.0
O5 A:OEX401 3.9 73.7 1.0
O C:HOH1090 4.0 46.9 1.0
NH2 C:ARG345 4.0 39.3 1.0
CG A:ASP342 4.0 53.7 1.0
NE2 A:HIS337 4.2 52.5 1.0
CA A:ALA344 4.2 54.8 1.0
CB A:ALA344 4.3 54.8 1.0
OD2 A:ASP342 4.4 53.7 1.0
CZ C:ARG345 4.5 39.3 1.0
CG C:GLU342 4.5 49.5 1.0
O4 A:OEX401 4.6 73.7 1.0
NH1 C:ARG345 4.6 39.3 1.0
N A:ALA344 4.7 54.8 1.0
CB C:GLU342 4.7 49.5 1.0
CD2 A:HIS337 4.9 52.5 1.0
OE2 A:GLU189 5.0 37.9 1.0

Manganese binding site 3 out of 8 in 7pi0

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Manganese binding site 3 out of 8 in the Unstacked Compact Dunaliella Psii


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 3 of Unstacked Compact Dunaliella Psii within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn401

b:73.7
occ:1.00
 MN3 A:OEX401 0.0 73.7 1.0
O2 A:OEX401 1.9 73.7 1.0
O3 A:OEX401 2.0 73.7 1.0
O4 A:OEX401 2.1 73.7 1.0
O5 A:OEX401 2.4 73.7 1.0
OE2 A:GLU333 2.7 52.6 1.0
MN2 A:OEX401 2.9 73.7 1.0
MN4 A:OEX401 2.9 73.7 1.0
MN1 A:OEX401 3.3 73.7 1.0
CA1 A:OEX401 3.4 73.7 1.0
NH2 C:ARG345 3.6 39.3 1.0
OE2 C:GLU342 3.6 49.5 1.0
CD A:GLU333 3.6 52.6 1.0
O1 A:OEX401 3.6 73.7 1.0
O C:HOH1152 3.6 46.5 1.0
O A:HOH1110 3.7 42.9 1.0
OD1 A:ASP170 3.9 38.4 1.0
CD C:GLU342 4.0 49.5 1.0
OE1 C:GLU342 4.2 49.5 1.0
CG A:GLU333 4.2 52.6 1.0
OE1 A:GLU333 4.3 52.6 1.0
CZ C:ARG345 4.7 39.3 1.0
O A:HOH1071 4.8 41.8 1.0
NE2 A:HIS337 4.9 52.5 1.0
OE2 A:GLU189 4.9 37.9 1.0
CB A:GLU333 4.9 52.6 1.0
CG A:ASP170 5.0 38.4 1.0
CG C:GLU342 5.0 49.5 1.0
OXT A:ALA344 5.0 54.8 1.0

Manganese binding site 4 out of 8 in 7pi0

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Manganese binding site 4 out of 8 in the Unstacked Compact Dunaliella Psii


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 4 of Unstacked Compact Dunaliella Psii within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn401

b:73.7
occ:1.00
 MN4 A:OEX401 0.0 73.7 1.0
O4 A:OEX401 2.1 73.7 1.0
O5 A:OEX401 2.4 73.7 1.0
OE2 A:GLU333 2.7 52.6 1.0
OD1 A:ASP170 2.7 38.4 1.0
O A:HOH1071 2.8 41.8 1.0
MN3 A:OEX401 2.9 73.7 1.0
O A:HOH1077 3.7 42.2 1.0
O2 A:OEX401 3.8 73.7 1.0
CA1 A:OEX401 3.8 73.7 1.0
CD A:GLU333 3.8 52.6 1.0
O A:HOH1026 3.8 36.5 1.0
CG A:ASP170 3.9 38.4 1.0
O A:HOH1110 4.1 42.9 1.0
OE1 A:GLU333 4.2 52.6 1.0
O A:SER169 4.4 34.8 1.0
CA A:ASP170 4.5 38.4 1.0
O3 A:OEX401 4.5 73.7 1.0
CG1 A:VAL185 4.7 30.2 1.0
CB A:ASP170 4.7 38.4 1.0
O A:HOH1046 4.8 39.7 1.0
OD2 A:ASP170 4.8 38.4 1.0
MN1 A:OEX401 4.9 73.7 1.0
C A:SER169 4.9 34.8 1.0
NH2 C:ARG345 4.9 39.3 1.0
N A:ASP170 4.9 38.4 1.0

Manganese binding site 5 out of 8 in 7pi0

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Manganese binding site 5 out of 8 in the Unstacked Compact Dunaliella Psii


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 5 of Unstacked Compact Dunaliella Psii within 5.0Å range:
probe atom residue distance (Å) B Occ
a:Mn401

b:69.8
occ:1.00
 MN1 a:OEX401 0.0 69.8 1.0
O3 a:OEX401 1.8 69.8 1.0
O1 a:OEX401 1.8 69.8 1.0
O5 a:OEX401 2.6 69.8 1.0
OE2 a:GLU189 2.6 32.9 1.0
OD2 a:ASP342 2.7 51.8 1.0
MN2 a:OEX401 2.7 69.8 1.0
NE2 a:HIS332 2.9 42.0 1.0
OD1 a:ASP342 3.1 51.8 1.0
CG a:ASP342 3.2 51.8 1.0
MN3 a:OEX401 3.3 69.8 1.0
CD a:GLU189 3.3 32.9 1.0
CA1 a:OEX401 3.5 69.8 1.0
NE2 a:HIS337 3.5 52.0 1.0
CD2 a:HIS332 3.6 42.0 1.0
O2 a:OEX401 3.6 69.8 1.0
OE1 a:GLU189 3.8 32.9 1.0
CE1 a:HIS332 4.0 42.0 1.0
CE1 a:HIS337 4.1 52.0 1.0
OE1 c:GLU342 4.3 50.1 1.0
CG a:GLU189 4.3 32.9 1.0
OXT a:ALA344 4.3 53.8 1.0
OE2 c:GLU342 4.4 50.1 1.0
CD2 a:HIS337 4.7 52.0 1.0
CB a:ASP342 4.7 51.8 1.0
CD c:GLU342 4.8 50.1 1.0
CG a:HIS332 4.8 42.0 1.0
MN4 a:OEX401 4.9 69.8 1.0
ND1 a:HIS332 5.0 42.0 1.0

Manganese binding site 6 out of 8 in 7pi0

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Manganese binding site 6 out of 8 in the Unstacked Compact Dunaliella Psii


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 6 of Unstacked Compact Dunaliella Psii within 5.0Å range:
probe atom residue distance (Å) B Occ
a:Mn401

b:69.8
occ:1.00
 MN2 a:OEX401 0.0 69.8 1.0
O1 a:OEX401 2.0 69.8 1.0
O2 a:OEX401 2.1 69.8 1.0
O3 a:OEX401 2.1 69.8 1.0
OE1 c:GLU342 2.6 50.1 1.0
MN1 a:OEX401 2.7 69.8 1.0
OXT a:ALA344 2.8 53.8 1.0
O a:ALA344 2.8 53.8 1.0
MN3 a:OEX401 2.9 69.8 1.0
C a:ALA344 3.0 53.8 1.0
OD1 a:ASP342 3.2 51.8 1.0
CA1 a:OEX401 3.3 69.8 1.0
CD c:GLU342 3.4 50.1 1.0
OE2 c:GLU342 3.7 50.1 1.0
O a:HOH1091 3.8 48.0 1.0
NH2 c:ARG345 3.9 37.9 1.0
O5 a:OEX401 3.9 69.8 1.0
O a:HOH1082 4.0 42.6 1.0
CG a:ASP342 4.2 51.8 1.0
NE2 a:HIS337 4.2 52.0 1.0
CA a:ALA344 4.3 53.8 1.0
CZ c:ARG345 4.4 37.9 1.0
OD2 a:ASP342 4.5 51.8 1.0
CG c:GLU342 4.5 50.1 1.0
CB a:ALA344 4.6 53.8 1.0
O4 a:OEX401 4.6 69.8 1.0
CB c:GLU342 4.6 50.1 1.0
NH1 c:ARG345 4.8 37.9 1.0
CD2 a:HIS337 4.9 52.0 1.0
N a:ALA344 4.9 53.8 1.0

Manganese binding site 7 out of 8 in 7pi0

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Manganese binding site 7 out of 8 in the Unstacked Compact Dunaliella Psii


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 7 of Unstacked Compact Dunaliella Psii within 5.0Å range:
probe atom residue distance (Å) B Occ
a:Mn401

b:69.8
occ:1.00
 MN3 a:OEX401 0.0 69.8 1.0
O2 a:OEX401 1.9 69.8 1.0
O3 a:OEX401 2.0 69.8 1.0
O4 a:OEX401 2.1 69.8 1.0
O5 a:OEX401 2.4 69.8 1.0
OE2 a:GLU333 2.9 49.0 1.0
MN2 a:OEX401 2.9 69.8 1.0
MN4 a:OEX401 2.9 69.8 1.0
MN1 a:OEX401 3.3 69.8 1.0
CA1 a:OEX401 3.4 69.8 1.0
O a:HOH1099 3.5 43.9 1.0
CD a:GLU333 3.5 49.0 1.0
O1 a:OEX401 3.6 69.8 1.0
OE2 c:GLU342 3.7 50.1 1.0
NH2 c:ARG345 3.7 37.9 1.0
OD1 a:ASP170 3.9 30.5 1.0
CG a:GLU333 4.0 49.0 1.0
CD c:GLU342 4.2 50.1 1.0
OE1 c:GLU342 4.3 50.1 1.0
OE1 a:GLU333 4.3 49.0 1.0
O a:HOH1064 4.7 41.5 1.0
CB a:GLU333 4.8 49.0 1.0
CG a:ASP170 4.8 30.5 1.0
CD2 a:HIS332 4.9 42.0 1.0
OD2 a:ASP170 4.9 30.5 1.0
CZ c:ARG345 4.9 37.9 1.0
NE2 a:HIS337 4.9 52.0 1.0

Manganese binding site 8 out of 8 in 7pi0

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Manganese binding site 8 out of 8 in the Unstacked Compact Dunaliella Psii


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 8 of Unstacked Compact Dunaliella Psii within 5.0Å range:
probe atom residue distance (Å) B Occ
a:Mn401

b:69.8
occ:1.00
 MN4 a:OEX401 0.0 69.8 1.0
O4 a:OEX401 2.1 69.8 1.0
O5 a:OEX401 2.4 69.8 1.0
OD1 a:ASP170 2.7 30.5 1.0
OE2 a:GLU333 2.7 49.0 1.0
O a:HOH1064 2.7 41.5 1.0
MN3 a:OEX401 2.9 69.8 1.0
O a:HOH1077 3.1 44.0 1.0
O a:HOH1055 3.5 40.6 1.0
O a:HOH1032 3.5 34.5 1.0
O2 a:OEX401 3.7 69.8 1.0
CA1 a:OEX401 3.8 69.8 1.0
CD a:GLU333 3.8 49.0 1.0
CG a:ASP170 3.9 30.5 1.0
OE1 a:GLU333 4.2 49.0 1.0
CG1 a:VAL185 4.3 29.2 1.0
O a:HOH1041 4.4 36.6 1.0
O a:SER169 4.5 27.5 1.0
O3 a:OEX401 4.5 69.8 1.0
O a:HOH1099 4.5 43.9 1.0
CA a:ASP170 4.6 30.5 1.0
OD2 a:ASP170 4.7 30.5 1.0
O a:HOH1014 4.7 31.7 1.0
CB a:ASP170 4.8 30.5 1.0
MN1 a:OEX401 4.9 69.8 1.0
CG a:GLU333 5.0 49.0 1.0

Reference:

I.Caspy, M.Fadeeva, Y.Mazor, M.Nelson. Structure of Dunaliella Photosystem II Reveals Conformational Flexibility of Stacked and Unstacked Supercomplexes To Be Published.
Page generated: Sun Oct 6 10:24:24 2024

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