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Manganese in PDB 8iwh: Structure and Characteristics of A Photosystem II Supercomplex Containing Monomeric Lhcx and Dimeric Fcpii Antennae From the Diatom Thalassiosira Pseudonana

Enzymatic activity of Structure and Characteristics of A Photosystem II Supercomplex Containing Monomeric Lhcx and Dimeric Fcpii Antennae From the Diatom Thalassiosira Pseudonana

All present enzymatic activity of Structure and Characteristics of A Photosystem II Supercomplex Containing Monomeric Lhcx and Dimeric Fcpii Antennae From the Diatom Thalassiosira Pseudonana:
1.10.3.9;

Other elements in 8iwh:

The structure of Structure and Characteristics of A Photosystem II Supercomplex Containing Monomeric Lhcx and Dimeric Fcpii Antennae From the Diatom Thalassiosira Pseudonana also contains other interesting chemical elements:

Calcium (Ca) 2 atoms
Iron (Fe) 6 atoms
Chlorine (Cl) 2 atoms
Magnesium (Mg) 191 atoms

Manganese Binding Sites:

The binding sites of Manganese atom in the Structure and Characteristics of A Photosystem II Supercomplex Containing Monomeric Lhcx and Dimeric Fcpii Antennae From the Diatom Thalassiosira Pseudonana (pdb code 8iwh). 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 and Characteristics of A Photosystem II Supercomplex Containing Monomeric Lhcx and Dimeric Fcpii Antennae From the Diatom Thalassiosira Pseudonana, PDB code: 8iwh:
Jump to Manganese binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Manganese binding site 1 out of 8 in 8iwh

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Manganese binding site 1 out of 8 in the Structure and Characteristics of A Photosystem II Supercomplex Containing Monomeric Lhcx and Dimeric Fcpii Antennae From the Diatom Thalassiosira Pseudonana


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Structure and Characteristics of A Photosystem II Supercomplex Containing Monomeric Lhcx and Dimeric Fcpii Antennae From the Diatom Thalassiosira Pseudonana within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn402

b:88.7
occ:1.00
 MN1 A:OEX402 0.0 88.7 1.0
O1 A:OEX402 1.8 88.7 1.0
O3 A:OEX402 1.8 88.7 1.0
OE2 A:GLU189 2.1 73.8 1.0
O5 A:OEX402 2.6 88.7 1.0
OD2 A:ASP342 2.7 75.2 1.0
MN2 A:OEX402 2.7 88.7 1.0
NE2 A:HIS332 2.7 75.8 1.0
MN3 A:OEX402 3.2 88.7 1.0
CD A:GLU189 3.3 73.8 1.0
CG A:ASP342 3.4 75.2 1.0
OD1 A:ASP342 3.4 75.2 1.0
CA1 A:OEX402 3.5 88.7 1.0
O2 A:OEX402 3.6 88.7 1.0
CD2 A:HIS332 3.7 75.8 1.0
CE1 A:HIS332 3.7 75.8 1.0
OE1 A:GLU189 3.9 73.8 1.0
OE1 A:GLU333 3.9 78.0 1.0
NE2 A:HIS337 4.0 76.1 1.0
OE2 C:GLU352 4.2 77.7 1.0
CG A:GLU189 4.5 73.8 1.0
CD A:GLU333 4.7 78.0 1.0
OE1 C:GLU352 4.8 77.7 1.0
CE1 A:HIS337 4.8 76.1 1.0
ND1 A:HIS332 4.8 75.8 1.0
CG A:HIS332 4.8 75.8 1.0
CB A:ASP342 4.9 75.2 1.0
MN4 A:OEX402 4.9 88.7 1.0
CD C:GLU352 4.9 77.7 1.0
OE2 A:GLU333 5.0 78.0 1.0

Manganese binding site 2 out of 8 in 8iwh

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Manganese binding site 2 out of 8 in the Structure and Characteristics of A Photosystem II Supercomplex Containing Monomeric Lhcx and Dimeric Fcpii Antennae From the Diatom Thalassiosira Pseudonana


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Structure and Characteristics of A Photosystem II Supercomplex Containing Monomeric Lhcx and Dimeric Fcpii Antennae From the Diatom Thalassiosira Pseudonana within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn402

b:88.7
occ:1.00
 MN2 A:OEX402 0.0 88.7 1.0
O1 A:OEX402 2.0 88.7 1.0
O2 A:OEX402 2.1 88.7 1.0
O3 A:OEX402 2.1 88.7 1.0
OE2 C:GLU352 2.2 77.7 1.0
OE1 C:GLU352 2.6 77.7 1.0
CD C:GLU352 2.6 77.7 1.0
MN1 A:OEX402 2.7 88.7 1.0
OD1 A:ASP342 2.8 75.2 1.0
MN3 A:OEX402 2.9 88.7 1.0
CA1 A:OEX402 3.3 88.7 1.0
CG A:ASP342 3.8 75.2 1.0
OD2 A:ASP342 3.9 75.2 1.0
O5 A:OEX402 3.9 88.7 1.0
NE2 A:HIS337 4.0 76.1 1.0
CG C:GLU352 4.0 77.7 1.0
OE1 A:GLU333 4.2 78.0 1.0
OE2 A:GLU189 4.5 73.8 1.0
CD2 A:HIS337 4.5 76.1 1.0
O4 A:OEX402 4.6 88.7 1.0
O A:LEU343 4.6 75.3 1.0
NH2 C:ARG355 4.7 72.8 1.0
CB C:GLU352 5.0 77.7 1.0

Manganese binding site 3 out of 8 in 8iwh

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Manganese binding site 3 out of 8 in the Structure and Characteristics of A Photosystem II Supercomplex Containing Monomeric Lhcx and Dimeric Fcpii Antennae From the Diatom Thalassiosira Pseudonana


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 3 of Structure and Characteristics of A Photosystem II Supercomplex Containing Monomeric Lhcx and Dimeric Fcpii Antennae From the Diatom Thalassiosira Pseudonana within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn402

b:88.7
occ:1.00
 MN3 A:OEX402 0.0 88.7 1.0
O2 A:OEX402 1.9 88.7 1.0
O3 A:OEX402 2.0 88.7 1.0
O4 A:OEX402 2.1 88.7 1.0
OE1 A:GLU333 2.1 78.0 1.0
O5 A:OEX402 2.4 88.7 1.0
OE2 C:GLU352 2.5 77.7 1.0
OE2 A:GLU333 2.8 78.0 1.0
CD A:GLU333 2.8 78.0 1.0
MN2 A:OEX402 2.9 88.7 1.0
MN4 A:OEX402 2.9 88.7 1.0
MN1 A:OEX402 3.2 88.7 1.0
CA1 A:OEX402 3.4 88.7 1.0
O1 A:OEX402 3.6 88.7 1.0
CD C:GLU352 3.8 77.7 1.0
OD1 A:ASP170 4.2 74.2 1.0
CG A:GLU333 4.3 78.0 1.0
NH2 C:ARG355 4.3 72.8 1.0
OE1 C:GLU352 4.5 77.7 1.0
NE2 A:HIS332 4.8 75.8 1.0
NE2 A:HIS337 4.8 76.1 1.0
CG C:GLU352 4.8 77.7 1.0
CB A:GLU333 4.9 78.0 1.0
OD2 A:ASP170 4.9 74.2 1.0
CD2 A:HIS332 5.0 75.8 1.0

Manganese binding site 4 out of 8 in 8iwh

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Manganese binding site 4 out of 8 in the Structure and Characteristics of A Photosystem II Supercomplex Containing Monomeric Lhcx and Dimeric Fcpii Antennae From the Diatom Thalassiosira Pseudonana


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 4 of Structure and Characteristics of A Photosystem II Supercomplex Containing Monomeric Lhcx and Dimeric Fcpii Antennae From the Diatom Thalassiosira Pseudonana within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn402

b:88.7
occ:1.00
 MN4 A:OEX402 0.0 88.7 1.0
O4 A:OEX402 2.1 88.7 1.0
OD1 A:ASP170 2.2 74.2 1.0
O5 A:OEX402 2.4 88.7 1.0
OE2 A:GLU333 2.7 78.0 1.0
MN3 A:OEX402 2.9 88.7 1.0
CG A:ASP170 3.4 74.2 1.0
CD A:GLU333 3.7 78.0 1.0
CA1 A:OEX402 3.8 88.7 1.0
O2 A:OEX402 3.8 88.7 1.0
OD2 A:ASP170 4.0 74.2 1.0
OE1 A:GLU333 4.1 78.0 1.0
CB A:ASP170 4.5 74.2 1.0
O3 A:OEX402 4.5 88.7 1.0
CA A:ASP170 4.6 74.2 1.0
O A:SER169 4.7 70.7 1.0
MN1 A:OEX402 4.9 88.7 1.0
CG1 A:VAL185 5.0 66.5 1.0

Manganese binding site 5 out of 8 in 8iwh

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Manganese binding site 5 out of 8 in the Structure and Characteristics of A Photosystem II Supercomplex Containing Monomeric Lhcx and Dimeric Fcpii Antennae From the Diatom Thalassiosira Pseudonana


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 5 of Structure and Characteristics of A Photosystem II Supercomplex Containing Monomeric Lhcx and Dimeric Fcpii Antennae From the Diatom Thalassiosira Pseudonana within 5.0Å range:
probe atom residue distance (Å) B Occ
a:Mn405

b:95.6
occ:1.00
 MN1 a:OEX405 0.0 95.6 1.0
O1 a:OEX405 1.8 95.6 1.0
O3 a:OEX405 1.8 95.6 1.0
OE2 a:GLU189 2.1 78.4 1.0
O5 a:OEX405 2.6 95.6 1.0
OD2 a:ASP342 2.6 87.5 1.0
NE2 a:HIS332 2.7 81.8 1.0
MN2 a:OEX405 2.7 95.6 1.0
MN3 a:OEX405 3.2 95.6 1.0
CD a:GLU189 3.3 78.4 1.0
CG a:ASP342 3.5 87.5 1.0
CA1 a:OEX405 3.5 95.6 1.0
OD1 a:ASP342 3.6 87.5 1.0
CE1 a:HIS332 3.6 81.8 1.0
O2 a:OEX405 3.6 95.6 1.0
CD2 a:HIS332 3.7 81.8 1.0
OE1 a:GLU189 3.9 78.4 1.0
NE2 a:HIS337 4.1 84.2 1.0
OE1 a:GLU333 4.3 85.9 1.0
OE2 c:GLU352 4.3 86.3 1.0
CG a:GLU189 4.5 78.4 1.0
ND1 a:HIS332 4.7 81.8 1.0
CE1 a:HIS337 4.7 84.2 1.0
CG a:HIS332 4.8 81.8 1.0
CD a:GLU333 4.8 85.9 1.0
MN4 a:OEX405 4.9 95.6 1.0
CB a:ASP342 4.9 87.5 1.0

Manganese binding site 6 out of 8 in 8iwh

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Manganese binding site 6 out of 8 in the Structure and Characteristics of A Photosystem II Supercomplex Containing Monomeric Lhcx and Dimeric Fcpii Antennae From the Diatom Thalassiosira Pseudonana


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 6 of Structure and Characteristics of A Photosystem II Supercomplex Containing Monomeric Lhcx and Dimeric Fcpii Antennae From the Diatom Thalassiosira Pseudonana within 5.0Å range:
probe atom residue distance (Å) B Occ
a:Mn405

b:95.6
occ:1.00
 MN2 a:OEX405 0.0 95.6 1.0
O1 a:OEX405 2.0 95.6 1.0
O2 a:OEX405 2.1 95.6 1.0
O3 a:OEX405 2.1 95.6 1.0
OD1 a:ASP342 2.2 87.5 1.0
MN1 a:OEX405 2.7 95.6 1.0
OE2 c:GLU352 2.9 86.3 1.0
MN3 a:OEX405 2.9 95.6 1.0
OE1 c:GLU352 2.9 86.3 1.0
CG a:ASP342 3.1 87.5 1.0
CD c:GLU352 3.2 86.3 1.0
OD2 a:ASP342 3.2 87.5 1.0
CA1 a:OEX405 3.3 95.6 1.0
O5 a:OEX405 3.9 95.6 1.0
NE2 a:HIS337 4.2 84.2 1.0
OE2 a:GLU189 4.2 78.4 1.0
O a:LEU343 4.4 89.5 1.0
CB a:ASP342 4.5 87.5 1.0
O4 a:OEX405 4.6 95.6 1.0
CG c:GLU352 4.6 86.3 1.0
CD2 a:HIS337 4.7 84.2 1.0
C a:ASP342 4.9 87.5 1.0
CA a:ASP342 4.9 87.5 1.0
O a:ASP342 4.9 87.5 1.0
OE1 a:GLU333 4.9 85.9 1.0

Manganese binding site 7 out of 8 in 8iwh

Go back to Manganese Binding Sites List in 8iwh
Manganese binding site 7 out of 8 in the Structure and Characteristics of A Photosystem II Supercomplex Containing Monomeric Lhcx and Dimeric Fcpii Antennae From the Diatom Thalassiosira Pseudonana


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 7 of Structure and Characteristics of A Photosystem II Supercomplex Containing Monomeric Lhcx and Dimeric Fcpii Antennae From the Diatom Thalassiosira Pseudonana within 5.0Å range:
probe atom residue distance (Å) B Occ
a:Mn405

b:95.6
occ:1.00
 MN3 a:OEX405 0.0 95.6 1.0
O2 a:OEX405 1.9 95.6 1.0
O3 a:OEX405 2.0 95.6 1.0
O4 a:OEX405 2.1 95.6 1.0
OE2 c:GLU352 2.1 86.3 1.0
O5 a:OEX405 2.4 95.6 1.0
OE1 a:GLU333 2.7 85.9 1.0
MN2 a:OEX405 2.9 95.6 1.0
MN4 a:OEX405 2.9 95.6 1.0
MN1 a:OEX405 3.2 95.6 1.0
CD c:GLU352 3.4 86.3 1.0
CA1 a:OEX405 3.4 95.6 1.0
CD a:GLU333 3.4 85.9 1.0
O1 a:OEX405 3.5 95.6 1.0
OE2 a:GLU333 3.6 85.9 1.0
OE1 c:GLU352 4.1 86.3 1.0
NH2 c:ARG355 4.1 82.0 1.0
OD1 a:ASP170 4.4 79.3 1.0
CG c:GLU352 4.4 86.3 1.0
NE2 a:HIS337 4.6 84.2 1.0
CG a:GLU333 4.8 85.9 1.0
OD1 a:ASP342 4.9 87.5 1.0
OD2 a:ASP170 4.9 79.3 1.0
NE2 a:HIS332 5.0 81.8 1.0

Manganese binding site 8 out of 8 in 8iwh

Go back to Manganese Binding Sites List in 8iwh
Manganese binding site 8 out of 8 in the Structure and Characteristics of A Photosystem II Supercomplex Containing Monomeric Lhcx and Dimeric Fcpii Antennae From the Diatom Thalassiosira Pseudonana


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 8 of Structure and Characteristics of A Photosystem II Supercomplex Containing Monomeric Lhcx and Dimeric Fcpii Antennae From the Diatom Thalassiosira Pseudonana within 5.0Å range:
probe atom residue distance (Å) B Occ
a:Mn405

b:95.6
occ:1.00
 MN4 a:OEX405 0.0 95.6 1.0
O4 a:OEX405 2.1 95.6 1.0
OD1 a:ASP170 2.2 79.3 1.0
O5 a:OEX405 2.4 95.6 1.0
OE2 a:GLU333 2.8 85.9 1.0
MN3 a:OEX405 2.9 95.6 1.0
CG a:ASP170 3.3 79.3 1.0
CD a:GLU333 3.7 85.9 1.0
CA1 a:OEX405 3.8 95.6 1.0
O2 a:OEX405 3.9 95.6 1.0
OD2 a:ASP170 3.9 79.3 1.0
OE1 a:GLU333 3.9 85.9 1.0
O3 a:OEX405 4.5 95.6 1.0
CB a:ASP170 4.5 79.3 1.0
NH2 c:ARG355 4.5 82.0 1.0
CA a:ASP170 4.6 79.3 1.0
O a:SER169 4.7 78.6 1.0
MN1 a:OEX405 4.9 95.6 1.0
OE2 c:GLU352 4.9 86.3 1.0

Reference:

Y.Feng, Z.H.Li, X.Y.Li, L.Shen, X.Y.Liu, C.Zhou, J.Y.Zhang, M.Sang, G.Y.Han, W.Q.Yang, T.Kuang, W.D.Wang, J.R.Shen. Structure of A Diatom Photosystem II Supercomplex Containing A Member of Lhcx Family and Dimeric Fcpii Sci Adv 2023.
ISSN: ESSN 2375-2548
DOI: 10.1126/SCIADV.ADI8446
Page generated: Sun Oct 6 12:58:49 2024

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