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Manganese in PDB 8wb4: Structure of Psii-Acpii Supercomplex From Cryptophyte Algae

Enzymatic activity of Structure of Psii-Acpii Supercomplex From Cryptophyte Algae

All present enzymatic activity of Structure of Psii-Acpii Supercomplex From Cryptophyte Algae:
1.10.3.9;

Other elements in 8wb4:

The structure of Structure of Psii-Acpii Supercomplex From Cryptophyte Algae also contains other interesting chemical elements:

Magnesium (Mg) 220 atoms
Calcium (Ca) 2 atoms
Chlorine (Cl) 2 atoms
Iron (Fe) 6 atoms

Manganese Binding Sites:

The binding sites of Manganese atom in the Structure of Psii-Acpii Supercomplex From Cryptophyte Algae (pdb code 8wb4). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 8 binding sites of Manganese where determined in the Structure of Psii-Acpii Supercomplex From Cryptophyte Algae, PDB code: 8wb4:
Jump to Manganese binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Manganese binding site 1 out of 8 in 8wb4

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Manganese binding site 1 out of 8 in the Structure of Psii-Acpii Supercomplex From Cryptophyte Algae


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Structure of Psii-Acpii Supercomplex From Cryptophyte Algae within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn601

b:181.9
occ:1.00
 MN1 A:OEX601 0.0 181.9 1.0
O1 A:OEX601 1.8 168.3 1.0
O3 A:OEX601 1.8 167.6 1.0
O5 A:OEX601 2.6 162.7 1.0
MN2 A:OEX601 2.7 181.7 1.0
MN3 A:OEX601 3.3 178.6 1.0
OE2 A:GLU189 3.4 88.0 1.0
OD2 A:ASP342 3.4 148.5 1.0
O A:ASP342 3.4 153.3 1.0
CA1 A:OEX601 3.5 168.3 1.0
CG A:ASP342 3.5 150.9 1.0
O2 A:OEX601 3.7 168.0 1.0
CD A:GLU189 3.7 92.0 1.0
OD1 A:ASP342 3.7 151.3 1.0
OE1 A:GLU189 4.1 96.4 1.0
CB A:ASP342 4.3 151.4 1.0
CG A:GLU189 4.3 82.7 1.0
OE1 A:GLN165 4.3 74.1 1.0
C A:ASP342 4.5 153.4 1.0
O A:LEU343 4.8 148.2 1.0
CB A:GLU189 4.8 73.7 1.0
MN4 A:OEX601 4.9 171.7 1.0
CA A:ASP342 4.9 152.6 1.0

Manganese binding site 2 out of 8 in 8wb4

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Manganese binding site 2 out of 8 in the Structure of Psii-Acpii Supercomplex From Cryptophyte Algae


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Structure of Psii-Acpii Supercomplex From Cryptophyte Algae within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn601

b:181.7
occ:1.00
 MN2 A:OEX601 0.0 181.7 1.0
O1 A:OEX601 2.0 168.3 1.0
O2 A:OEX601 2.1 168.0 1.0
O3 A:OEX601 2.1 167.6 1.0
MN1 A:OEX601 2.7 181.9 1.0
MN3 A:OEX601 2.9 178.6 1.0
OE1 C:GLU342 3.1 115.9 1.0
OD1 A:ASP342 3.1 151.3 1.0
CA1 A:OEX601 3.3 168.3 1.0
CD C:GLU342 3.3 116.9 1.0
OE2 C:GLU342 3.3 113.2 1.0
O A:ASP342 3.7 153.3 1.0
CG A:ASP342 3.9 150.9 1.0
O5 A:OEX601 3.9 162.7 1.0
O A:LEU343 4.0 148.2 1.0
C A:ASP342 4.3 153.4 1.0
OD2 A:ASP342 4.3 148.5 1.0
CG C:GLU342 4.4 114.6 1.0
O4 A:OEX601 4.6 164.4 1.0
C A:LEU343 4.6 147.8 1.0
CA A:ASP342 4.8 152.6 1.0
CB A:ASP342 4.8 151.4 1.0

Manganese binding site 3 out of 8 in 8wb4

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Manganese binding site 3 out of 8 in the Structure of Psii-Acpii Supercomplex From Cryptophyte Algae


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 3 of Structure of Psii-Acpii Supercomplex From Cryptophyte Algae within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn601

b:178.6
occ:1.00
 MN3 A:OEX601 0.0 178.6 1.0
O2 A:OEX601 1.9 168.0 1.0
O3 A:OEX601 2.0 167.6 1.0
O4 A:OEX601 2.1 164.4 1.0
O5 A:OEX601 2.4 162.7 1.0
MN4 A:OEX601 2.9 171.7 1.0
MN2 A:OEX601 2.9 181.7 1.0
OE1 A:GLU333 2.9 128.2 1.0
OE2 C:GLU342 3.1 113.2 1.0
MN1 A:OEX601 3.3 181.9 1.0
CA1 A:OEX601 3.4 168.3 1.0
OE2 A:GLU189 3.4 88.0 1.0
OE2 A:GLU333 3.6 128.9 1.0
O1 A:OEX601 3.6 168.3 1.0
CD A:GLU333 3.6 129.4 1.0
CD C:GLU342 4.0 116.9 1.0
NE2 A:HIS332 4.3 104.7 1.0
CD A:GLU189 4.4 92.0 1.0
OE1 C:GLU342 4.4 115.9 1.0
OD1 A:ASP342 4.4 151.3 1.0
NH2 C:ARG345 4.4 88.6 1.0
CE1 A:HIS337 4.6 137.5 1.0
OE1 A:GLU189 4.6 96.4 1.0
OD2 A:ASP342 4.6 148.5 1.0
OD1 A:ASP170 4.7 86.3 1.0
NH1 C:ARG345 4.7 88.5 1.0
CD2 A:HIS332 4.8 104.2 1.0
CG A:ASP342 4.9 150.9 1.0
CZ C:ARG345 4.9 89.9 1.0
OD2 A:ASP170 5.0 88.7 1.0

Manganese binding site 4 out of 8 in 8wb4

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Manganese binding site 4 out of 8 in the Structure of Psii-Acpii Supercomplex From Cryptophyte Algae


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 4 of Structure of Psii-Acpii Supercomplex From Cryptophyte Algae within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn601

b:171.7
occ:1.00
 MN4 A:OEX601 0.0 171.7 1.0
O4 A:OEX601 2.1 164.4 1.0
O5 A:OEX601 2.4 162.7 1.0
OD1 A:ASP170 2.8 86.3 1.0
MN3 A:OEX601 2.9 178.6 1.0
CG A:ASP170 3.1 83.4 1.0
OE2 A:GLU333 3.2 128.9 1.0
OD2 A:ASP170 3.5 88.7 1.0
CB A:ASP170 3.8 68.8 1.0
CA1 A:OEX601 3.8 168.3 1.0
O2 A:OEX601 3.9 168.0 1.0
OE1 A:GLU189 3.9 96.4 1.0
CD A:GLU333 4.1 129.4 1.0
OE2 A:GLU189 4.1 88.0 1.0
OE1 A:GLU333 4.3 128.2 1.0
CD A:GLU189 4.5 92.0 1.0
O3 A:OEX601 4.5 167.6 1.0
CA A:ASP170 4.5 70.5 1.0
NH1 C:ARG345 4.7 88.5 1.0
CG1 A:VAL185 4.7 69.4 1.0
OH A:TYR161 4.8 68.3 1.0
MN1 A:OEX601 4.9 181.9 1.0
NH2 C:ARG345 5.0 88.6 1.0
CE2 A:TYR161 5.0 59.1 1.0

Manganese binding site 5 out of 8 in 8wb4

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Manganese binding site 5 out of 8 in the Structure of Psii-Acpii Supercomplex From Cryptophyte Algae


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 5 of Structure of Psii-Acpii Supercomplex From Cryptophyte Algae within 5.0Å range:
probe atom residue distance (Å) B Occ
a:Mn404

b:240.8
occ:1.00
 MN1 a:OEX404 0.0 240.8 1.0
O1 a:OEX404 1.8 235.8 1.0
O3 a:OEX404 1.8 233.4 1.0
O5 a:OEX404 2.6 232.7 1.0
MN2 a:OEX404 2.7 242.9 1.0
OE2 a:GLU189 3.1 81.6 1.0
OD2 a:ASP342 3.2 144.4 1.0
MN3 a:OEX404 3.3 237.5 1.0
CG a:ASP342 3.4 146.5 1.0
CD a:GLU189 3.4 86.3 1.0
OD1 a:ASP342 3.5 146.3 1.0
CA1 a:OEX404 3.5 237.2 1.0
O2 a:OEX404 3.7 236.1 1.0
O a:ASP342 3.8 147.0 1.0
OE1 a:GLU189 3.9 91.2 1.0
CG a:GLU189 4.1 75.9 1.0
CB a:ASP342 4.4 146.6 1.0
OE1 a:GLN165 4.4 68.6 1.0
CB a:GLU189 4.8 65.0 1.0
C a:ASP342 4.8 148.8 1.0
MN4 a:OEX404 4.9 231.2 1.0
NE2 a:HIS332 5.0 104.7 1.0

Manganese binding site 6 out of 8 in 8wb4

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Manganese binding site 6 out of 8 in the Structure of Psii-Acpii Supercomplex From Cryptophyte Algae


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 6 of Structure of Psii-Acpii Supercomplex From Cryptophyte Algae within 5.0Å range:
probe atom residue distance (Å) B Occ
a:Mn404

b:242.9
occ:1.00
 MN2 a:OEX404 0.0 242.9 1.0
O1 a:OEX404 2.0 235.8 1.0
O2 a:OEX404 2.1 236.1 1.0
O3 a:OEX404 2.1 233.4 1.0
MN1 a:OEX404 2.7 240.8 1.0
OD1 a:ASP342 2.9 146.3 1.0
MN3 a:OEX404 2.9 237.5 1.0
OE1 c:GLU342 3.1 133.8 1.0
OE2 c:GLU342 3.1 133.7 1.0
CD c:GLU342 3.2 133.3 1.0
CA1 a:OEX404 3.3 237.2 1.0
CG a:ASP342 3.8 146.5 1.0
O5 a:OEX404 3.9 232.7 1.0
O a:ASP342 4.1 147.0 1.0
OD2 a:ASP342 4.2 144.4 1.0
CG c:GLU342 4.2 130.4 1.0
O a:LEU343 4.3 142.8 1.0
O4 a:OEX404 4.6 230.4 1.0
C a:ASP342 4.6 148.8 1.0
CB a:ASP342 4.9 146.6 1.0
NH1 c:ARG345 4.9 106.3 1.0
OE1 a:GLU333 4.9 120.1 1.0
CZ c:ARG345 4.9 103.9 1.0
NH2 c:ARG345 4.9 106.0 1.0
OE2 a:GLU189 5.0 81.6 1.0
CA a:ASP342 5.0 147.5 1.0

Manganese binding site 7 out of 8 in 8wb4

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Manganese binding site 7 out of 8 in the Structure of Psii-Acpii Supercomplex From Cryptophyte Algae


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 7 of Structure of Psii-Acpii Supercomplex From Cryptophyte Algae within 5.0Å range:
probe atom residue distance (Å) B Occ
a:Mn404

b:237.5
occ:1.00
 MN3 a:OEX404 0.0 237.5 1.0
O2 a:OEX404 1.9 236.1 1.0
O3 a:OEX404 2.0 233.4 1.0
O4 a:OEX404 2.1 230.4 1.0
O5 a:OEX404 2.4 232.7 1.0
OE1 a:GLU333 2.8 120.1 1.0
MN4 a:OEX404 2.9 231.2 1.0
MN2 a:OEX404 2.9 242.9 1.0
OE2 a:GLU333 2.9 122.6 1.0
OE2 c:GLU342 3.1 133.7 1.0
CD a:GLU333 3.2 123.5 1.0
MN1 a:OEX404 3.3 240.8 1.0
CA1 a:OEX404 3.4 237.2 1.0
OE2 a:GLU189 3.5 81.6 1.0
O1 a:OEX404 3.6 235.8 1.0
CD c:GLU342 4.1 133.3 1.0
NH2 c:ARG345 4.3 106.0 1.0
OD1 a:ASP170 4.4 75.9 1.0
CD a:GLU189 4.4 86.3 1.0
NE2 a:HIS332 4.5 104.7 1.0
OD1 a:ASP342 4.6 146.3 1.0
NH1 c:ARG345 4.6 106.3 1.0
OE1 a:GLU189 4.6 91.2 1.0
OE1 c:GLU342 4.6 133.8 1.0
CG a:GLU333 4.7 122.0 1.0
OD2 a:ASP342 4.7 144.4 1.0
CE1 a:HIS337 4.8 135.2 1.0
CD2 a:HIS332 4.8 103.0 1.0
CZ c:ARG345 4.8 103.9 1.0

Manganese binding site 8 out of 8 in 8wb4

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Manganese binding site 8 out of 8 in the Structure of Psii-Acpii Supercomplex From Cryptophyte Algae


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 8 of Structure of Psii-Acpii Supercomplex From Cryptophyte Algae within 5.0Å range:
probe atom residue distance (Å) B Occ
a:Mn404

b:231.2
occ:1.00
 MN4 a:OEX404 0.0 231.2 1.0
O4 a:OEX404 2.1 230.4 1.0
O5 a:OEX404 2.4 232.7 1.0
OD1 a:ASP170 2.8 75.9 1.0
MN3 a:OEX404 2.9 237.5 1.0
OE2 a:GLU333 3.1 122.6 1.0
CG a:ASP170 3.5 84.0 1.0
CB a:ASP170 3.8 72.0 1.0
CA1 a:OEX404 3.8 237.2 1.0
O2 a:OEX404 3.9 236.1 1.0
CD a:GLU333 4.1 123.5 1.0
OE1 a:GLU189 4.1 91.2 1.0
CA a:ASP170 4.1 66.3 1.0
OE1 a:GLU333 4.3 120.1 1.0
OE2 a:GLU189 4.4 81.6 1.0
OD2 a:ASP170 4.4 94.7 1.0
O3 a:OEX404 4.5 233.4 1.0
CD a:GLU189 4.7 86.3 1.0
CG1 a:VAL185 4.7 64.7 1.0
OH a:TYR161 4.7 67.5 1.0
NH1 c:ARG345 4.7 106.3 1.0
CE2 a:TYR161 4.8 61.0 1.0
MN1 a:OEX404 4.9 240.8 1.0
N a:ASP170 5.0 65.2 1.0

Reference:

Z.Mao, X.Li, Z.Li, L.Shen, X.Li, Y.Yang, W.Wang, T.Kuang, J.R.Shen, G.Han. Structure and Distinct Supramolecular Organization of A Psii-Acpii Dimer From A Cryptophyte Alga Chroomonas Placoidea. Nat Commun V. 15 4535 2024.
ISSN: ESSN 2041-1723
PubMed: 38806516
DOI: 10.1038/S41467-024-48878-X
Page generated: Sun Oct 6 14:10:01 2024

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