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Manganese in PDB 6yp7: Psii-Lhcii C2S2 Supercomplex From Pisum Sativum Grown in High Light Conditions

Enzymatic activity of Psii-Lhcii C2S2 Supercomplex From Pisum Sativum Grown in High Light Conditions

All present enzymatic activity of Psii-Lhcii C2S2 Supercomplex From Pisum Sativum Grown in High Light Conditions:
1.10.3.9;

Other elements in 6yp7:

The structure of Psii-Lhcii C2S2 Supercomplex From Pisum Sativum Grown in High Light Conditions also contains other interesting chemical elements:

Magnesium (Mg) 198 atoms
Iron (Fe) 4 atoms
Calcium (Ca) 2 atoms
Chlorine (Cl) 4 atoms

Manganese Binding Sites:

The binding sites of Manganese atom in the Psii-Lhcii C2S2 Supercomplex From Pisum Sativum Grown in High Light Conditions (pdb code 6yp7). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 8 binding sites of Manganese where determined in the Psii-Lhcii C2S2 Supercomplex From Pisum Sativum Grown in High Light Conditions, PDB code: 6yp7:
Jump to Manganese binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Manganese binding site 1 out of 8 in 6yp7

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Manganese binding site 1 out of 8 in the Psii-Lhcii C2S2 Supercomplex From Pisum Sativum Grown in High Light Conditions


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Psii-Lhcii C2S2 Supercomplex From Pisum Sativum Grown in High Light Conditions within 5.0Å range:
probe atom residue distance (Å) B Occ
a:Mn401

b:0.5
occ:1.00
 MN1 a:OEX401 0.0 0.5 1.0
O1 a:OEX401 1.8 0.5 1.0
O3 a:OEX401 1.8 0.5 1.0
O5 a:OEX401 2.6 0.5 1.0
OD2 a:ASP342 2.6 0.7 1.0
OE2 a:GLU189 2.6 0.9 1.0
MN2 a:OEX401 2.7 0.5 1.0
NE2 a:HIS332 2.8 1.0 1.0
OE1 a:GLU333 3.2 0.3 1.0
MN3 a:OEX401 3.2 0.5 1.0
CA1 a:OEX401 3.5 0.5 1.0
CG a:ASP342 3.6 0.7 1.0
CD a:GLU189 3.6 0.9 1.0
O2 a:OEX401 3.6 0.5 1.0
CE1 a:HIS332 3.7 1.0 1.0
NE2 a:HIS337 3.7 0.9 1.0
CD2 a:HIS332 3.9 1.0 1.0
OD1 a:ASP342 3.9 0.7 1.0
OE1 a:GLU189 4.2 0.9 1.0
OE2 c:GLU354 4.2 0.3 1.0
CD a:GLU333 4.2 0.3 1.0
CE1 a:HIS337 4.5 0.9 1.0
OXT a:ALA344 4.7 0.2 1.0
OE2 a:GLU333 4.7 0.3 1.0
CG a:GLU189 4.7 0.9 1.0
CD2 a:HIS337 4.7 0.9 1.0
ND1 a:HIS332 4.9 1.0 1.0
MN4 a:OEX401 4.9 0.5 1.0
OE1 c:GLU354 4.9 0.3 1.0
CB a:ASP342 5.0 0.7 1.0
CD c:GLU354 5.0 0.3 1.0
CG a:HIS332 5.0 1.0 1.0

Manganese binding site 2 out of 8 in 6yp7

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Manganese binding site 2 out of 8 in the Psii-Lhcii C2S2 Supercomplex From Pisum Sativum Grown in High Light Conditions


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Psii-Lhcii C2S2 Supercomplex From Pisum Sativum Grown in High Light Conditions within 5.0Å range:
probe atom residue distance (Å) B Occ
a:Mn401

b:0.5
occ:1.00
 MN2 a:OEX401 0.0 0.5 1.0
O1 a:OEX401 2.0 0.5 1.0
O2 a:OEX401 2.1 0.5 1.0
O3 a:OEX401 2.1 0.5 1.0
OXT a:ALA344 2.6 0.2 1.0
OE1 c:GLU354 2.6 0.3 1.0
OD1 a:ASP342 2.7 0.7 1.0
MN1 a:OEX401 2.7 0.5 1.0
MN3 a:OEX401 2.9 0.5 1.0
O a:ALA344 2.9 0.2 1.0
C a:ALA344 3.0 0.2 1.0
OE2 c:GLU354 3.2 0.3 1.0
OD2 a:ASP342 3.2 0.7 1.0
CD c:GLU354 3.2 0.3 1.0
CG a:ASP342 3.3 0.7 1.0
CA1 a:OEX401 3.3 0.5 1.0
O5 a:OEX401 3.9 0.5 1.0
CA a:ALA344 4.2 0.2 1.0
CB a:ALA344 4.5 0.2 1.0
NE2 a:HIS337 4.5 0.9 1.0
O4 a:OEX401 4.5 0.5 1.0
N a:ALA344 4.6 0.2 1.0
CG c:GLU354 4.6 0.3 1.0
OE2 a:GLU189 4.7 0.9 1.0
OE1 a:GLU333 4.7 0.3 1.0
O a:ASP342 4.7 0.7 1.0
CB a:ASP342 4.8 0.7 1.0
CD2 a:HIS337 4.9 0.9 1.0

Manganese binding site 3 out of 8 in 6yp7

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Manganese binding site 3 out of 8 in the Psii-Lhcii C2S2 Supercomplex From Pisum Sativum Grown in High Light Conditions


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 3 of Psii-Lhcii C2S2 Supercomplex From Pisum Sativum Grown in High Light Conditions within 5.0Å range:
probe atom residue distance (Å) B Occ
a:Mn401

b:0.5
occ:1.00
 MN3 a:OEX401 0.0 0.5 1.0
O2 a:OEX401 1.9 0.5 1.0
O3 a:OEX401 2.0 0.5 1.0
O4 a:OEX401 2.1 0.5 1.0
O5 a:OEX401 2.4 0.5 1.0
MN2 a:OEX401 2.9 0.5 1.0
MN4 a:OEX401 2.9 0.5 1.0
OE1 a:GLU333 3.0 0.3 1.0
MN1 a:OEX401 3.2 0.5 1.0
OE2 a:GLU333 3.4 0.3 1.0
CA1 a:OEX401 3.4 0.5 1.0
O1 a:OEX401 3.6 0.5 1.0
CD a:GLU333 3.6 0.3 1.0
OE2 c:GLU354 3.6 0.3 1.0
CD c:GLU354 4.0 0.3 1.0
NH2 c:ARG357 4.0 0.7 1.0
OE1 c:GLU354 4.2 0.3 1.0
OD2 a:ASP170 4.5 0.5 1.0
O a:ALA344 4.6 0.2 1.0
OD1 a:ASP170 4.7 0.5 1.0
CG c:GLU354 4.9 0.3 1.0
CZ c:ARG357 4.9 0.7 1.0
CG a:ASP170 5.0 0.5 1.0
OE2 a:GLU189 5.0 0.9 1.0

Manganese binding site 4 out of 8 in 6yp7

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Manganese binding site 4 out of 8 in the Psii-Lhcii C2S2 Supercomplex From Pisum Sativum Grown in High Light Conditions


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 4 of Psii-Lhcii C2S2 Supercomplex From Pisum Sativum Grown in High Light Conditions within 5.0Å range:
probe atom residue distance (Å) B Occ
a:Mn401

b:0.5
occ:1.00
 MN4 a:OEX401 0.0 0.5 1.0
O4 a:OEX401 2.1 0.5 1.0
O5 a:OEX401 2.4 0.5 1.0
OE2 a:GLU333 2.8 0.3 1.0
OD1 a:ASP170 2.8 0.5 1.0
MN3 a:OEX401 2.9 0.5 1.0
CG a:ASP170 3.2 0.5 1.0
OD2 a:ASP170 3.3 0.5 1.0
CA1 a:OEX401 3.8 0.5 1.0
CD a:GLU333 3.8 0.3 1.0
O2 a:OEX401 3.8 0.5 1.0
OE1 a:GLU333 4.1 0.3 1.0
CB a:ASP170 4.3 0.5 1.0
O3 a:OEX401 4.5 0.5 1.0
CA a:ASP170 4.6 0.5 1.0
NH2 c:ARG357 4.7 0.7 1.0
O a:SER169 4.8 0.4 1.0
MN1 a:OEX401 4.9 0.5 1.0
OG a:SER169 4.9 0.4 1.0

Manganese binding site 5 out of 8 in 6yp7

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Manganese binding site 5 out of 8 in the Psii-Lhcii C2S2 Supercomplex From Pisum Sativum Grown in High Light Conditions


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 5 of Psii-Lhcii C2S2 Supercomplex From Pisum Sativum Grown in High Light Conditions within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn402

b:0.6
occ:1.00
 MN1 A:OEX402 0.0 0.6 1.0
O1 A:OEX402 1.8 0.6 1.0
O3 A:OEX402 1.8 0.6 1.0
O5 A:OEX402 2.6 0.6 1.0
OE2 A:GLU189 2.6 0.0 1.0
OD2 A:ASP342 2.6 0.9 1.0
MN2 A:OEX402 2.7 0.6 1.0
NE2 A:HIS332 2.8 0.1 1.0
OE1 A:GLU333 3.2 0.2 1.0
MN3 A:OEX402 3.2 0.6 1.0
CA1 A:OEX402 3.5 0.6 1.0
CG A:ASP342 3.6 0.9 1.0
CD A:GLU189 3.6 0.0 1.0
O2 A:OEX402 3.6 0.6 1.0
CE1 A:HIS332 3.7 0.1 1.0
NE2 A:HIS337 3.7 0.6 1.0
CD2 A:HIS332 3.9 0.1 1.0
OD1 A:ASP342 3.9 0.9 1.0
OE1 A:GLU189 4.2 0.0 1.0
CD A:GLU333 4.2 0.2 1.0
OE2 C:GLU354 4.2 0.8 1.0
CE1 A:HIS337 4.5 0.6 1.0
OXT A:ALA344 4.7 0.8 1.0
OE2 A:GLU333 4.7 0.2 1.0
CG A:GLU189 4.7 0.0 1.0
CD2 A:HIS337 4.7 0.6 1.0
ND1 A:HIS332 4.9 0.1 1.0
MN4 A:OEX402 4.9 0.6 1.0
OE1 C:GLU354 4.9 0.8 1.0
CB A:ASP342 5.0 0.9 1.0
CG A:HIS332 5.0 0.1 1.0
CD C:GLU354 5.0 0.8 1.0

Manganese binding site 6 out of 8 in 6yp7

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Manganese binding site 6 out of 8 in the Psii-Lhcii C2S2 Supercomplex From Pisum Sativum Grown in High Light Conditions


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 6 of Psii-Lhcii C2S2 Supercomplex From Pisum Sativum Grown in High Light Conditions within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn402

b:0.6
occ:1.00
 MN2 A:OEX402 0.0 0.6 1.0
O1 A:OEX402 2.0 0.6 1.0
O2 A:OEX402 2.1 0.6 1.0
O3 A:OEX402 2.1 0.6 1.0
OXT A:ALA344 2.6 0.8 1.0
OD1 A:ASP342 2.7 0.9 1.0
OE1 C:GLU354 2.7 0.8 1.0
MN1 A:OEX402 2.7 0.6 1.0
MN3 A:OEX402 2.9 0.6 1.0
O A:ALA344 2.9 0.8 1.0
C A:ALA344 3.0 0.8 1.0
OD2 A:ASP342 3.2 0.9 1.0
OE2 C:GLU354 3.3 0.8 1.0
CD C:GLU354 3.3 0.8 1.0
CG A:ASP342 3.3 0.9 1.0
CA1 A:OEX402 3.3 0.6 1.0
O5 A:OEX402 3.9 0.6 1.0
CA A:ALA344 4.2 0.8 1.0
CB A:ALA344 4.5 0.8 1.0
NE2 A:HIS337 4.5 0.6 1.0
O4 A:OEX402 4.5 0.6 1.0
N A:ALA344 4.6 0.8 1.0
OE2 A:GLU189 4.7 0.0 1.0
OE1 A:GLU333 4.7 0.2 1.0
CG C:GLU354 4.7 0.8 1.0
O A:ASP342 4.7 0.9 1.0
CB A:ASP342 4.8 0.9 1.0
CD2 A:HIS337 4.9 0.6 1.0

Manganese binding site 7 out of 8 in 6yp7

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Manganese binding site 7 out of 8 in the Psii-Lhcii C2S2 Supercomplex From Pisum Sativum Grown in High Light Conditions


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 7 of Psii-Lhcii C2S2 Supercomplex From Pisum Sativum Grown in High Light Conditions within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn402

b:0.6
occ:1.00
 MN3 A:OEX402 0.0 0.6 1.0
O2 A:OEX402 1.9 0.6 1.0
O3 A:OEX402 2.0 0.6 1.0
O4 A:OEX402 2.1 0.6 1.0
O5 A:OEX402 2.4 0.6 1.0
MN2 A:OEX402 2.9 0.6 1.0
MN4 A:OEX402 2.9 0.6 1.0
OE1 A:GLU333 3.0 0.2 1.0
MN1 A:OEX402 3.2 0.6 1.0
OE2 A:GLU333 3.4 0.2 1.0
CA1 A:OEX402 3.4 0.6 1.0
O1 A:OEX402 3.6 0.6 1.0
CD A:GLU333 3.6 0.2 1.0
OE2 C:GLU354 3.6 0.8 1.0
CD C:GLU354 4.0 0.8 1.0
NH2 C:ARG357 4.0 0.0 1.0
OE1 C:GLU354 4.1 0.8 1.0
OD2 A:ASP170 4.5 0.3 1.0
O A:ALA344 4.6 0.8 1.0
OD1 A:ASP170 4.7 0.3 1.0
CZ C:ARG357 4.9 0.0 1.0
CG C:GLU354 4.9 0.8 1.0
CG A:ASP170 5.0 0.3 1.0
OE2 A:GLU189 5.0 0.0 1.0

Manganese binding site 8 out of 8 in 6yp7

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Manganese binding site 8 out of 8 in the Psii-Lhcii C2S2 Supercomplex From Pisum Sativum Grown in High Light Conditions


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 8 of Psii-Lhcii C2S2 Supercomplex From Pisum Sativum Grown in High Light Conditions within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn402

b:0.6
occ:1.00
 MN4 A:OEX402 0.0 0.6 1.0
O4 A:OEX402 2.1 0.6 1.0
O5 A:OEX402 2.4 0.6 1.0
OE2 A:GLU333 2.8 0.2 1.0
OD1 A:ASP170 2.8 0.3 1.0
MN3 A:OEX402 2.9 0.6 1.0
CG A:ASP170 3.2 0.3 1.0
OD2 A:ASP170 3.3 0.3 1.0
CA1 A:OEX402 3.8 0.6 1.0
CD A:GLU333 3.8 0.2 1.0
O2 A:OEX402 3.8 0.6 1.0
OE1 A:GLU333 4.1 0.2 1.0
CB A:ASP170 4.3 0.3 1.0
O3 A:OEX402 4.5 0.6 1.0
CA A:ASP170 4.6 0.3 1.0
NH2 C:ARG357 4.7 0.0 1.0
O A:SER169 4.8 0.5 1.0
MN1 A:OEX402 4.9 0.6 1.0
OG A:SER169 4.9 0.5 1.0

Reference:

A.Grinzato, P.Albanese, R.Marotta, P.Swuec, G.Saracco, M.Bolognesi, G.Zanotti, C.Pagliano. High-Light Versus Low-Light: Effects on Paired Photosystem II Supercomplex Structural Rearrangement in Pea Plants. Int J Mol Sci V. 21 2020.
ISSN: ESSN 1422-0067
PubMed: 33207833
DOI: 10.3390/IJMS21228643
Page generated: Sun Oct 6 07:54:31 2024

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