Calcium in PDB 7oui: Structure of C2S2M2-Type Photosystem Supercomplex From Arabidopsis Thaliana (Digitonin-Extracted)

Enzymatic activity of Structure of C2S2M2-Type Photosystem Supercomplex From Arabidopsis Thaliana (Digitonin-Extracted)

All present enzymatic activity of Structure of C2S2M2-Type Photosystem Supercomplex From Arabidopsis Thaliana (Digitonin-Extracted):
1.10.3.9;

Other elements in 7oui:

The structure of Structure of C2S2M2-Type Photosystem Supercomplex From Arabidopsis Thaliana (Digitonin-Extracted) also contains other interesting chemical elements:

Iron (Fe) 4 atoms
Magnesium (Mg) 222 atoms
Chlorine (Cl) 2 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the Structure of C2S2M2-Type Photosystem Supercomplex From Arabidopsis Thaliana (Digitonin-Extracted) (pdb code 7oui). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the Structure of C2S2M2-Type Photosystem Supercomplex From Arabidopsis Thaliana (Digitonin-Extracted), PDB code: 7oui:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in 7oui

Go back to Calcium Binding Sites List in 7oui
Calcium binding site 1 out of 4 in the Structure of C2S2M2-Type Photosystem Supercomplex From Arabidopsis Thaliana (Digitonin-Extracted)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Structure of C2S2M2-Type Photosystem Supercomplex From Arabidopsis Thaliana (Digitonin-Extracted) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca416

b:49.2
occ:1.00
 NE2 A:GLN165 2.3 20.8 1.0
OD1 A:ASP170 2.4 29.2 1.0
CG A:ASP170 2.8 29.2 1.0
OD2 A:ASP170 2.9 29.2 1.0
CD A:GLN165 3.3 20.8 1.0
CG A:GLN165 3.5 20.8 1.0
CB A:GLN165 3.7 20.8 1.0
O A:HOH501 3.7 35.7 1.0
CB A:ASP170 3.9 29.2 1.0
OH A:TYR161 3.9 22.6 1.0
OE2 A:GLU189 4.0 35.8 1.0
NH1 C:ARG357 4.0 27.2 1.0
OE1 A:GLU189 4.2 35.8 1.0
O A:HOH518 4.2 50.5 1.0
OE1 A:GLN165 4.4 20.8 1.0
CD A:GLU189 4.5 35.8 1.0
CZ A:TYR161 4.5 22.6 1.0
O A:HOH515 4.6 45.6 1.0
CE2 A:TYR161 4.6 22.6 1.0
O C:HOH613 4.7 48.2 1.0
CA A:GLN165 4.9 20.8 1.0
CA A:ASP170 4.9 29.2 1.0
NH2 C:ARG357 5.0 27.2 1.0

Calcium binding site 2 out of 4 in 7oui

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Calcium binding site 2 out of 4 in the Structure of C2S2M2-Type Photosystem Supercomplex From Arabidopsis Thaliana (Digitonin-Extracted)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Structure of C2S2M2-Type Photosystem Supercomplex From Arabidopsis Thaliana (Digitonin-Extracted) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca627

b:68.2
occ:1.00
 O B:GLU266 3.9 34.5 1.0
O B:ILE80 4.1 40.2 1.0
O B:PRO50 4.2 38.8 1.0
CB B:PRO50 4.4 38.8 1.0
CE B:MET55 4.6 34.4 1.0
OE1 B:GLU266 4.6 34.5 1.0
CG1 B:ILE80 4.7 40.2 1.0
C B:GLU266 4.7 34.5 1.0
CG B:MET55 4.7 34.4 1.0
CB B:PRO54 4.8 32.4 1.0
O B:HOH709 4.8 39.6 1.0
CB B:GLU266 4.8 34.5 1.0
CA B:PRO50 4.8 38.8 1.0
N B:MET55 4.9 34.4 1.0
CH2 B:TRP167 5.0 28.3 1.0
C B:PRO50 5.0 38.8 1.0

Calcium binding site 3 out of 4 in 7oui

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Calcium binding site 3 out of 4 in the Structure of C2S2M2-Type Photosystem Supercomplex From Arabidopsis Thaliana (Digitonin-Extracted)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Structure of C2S2M2-Type Photosystem Supercomplex From Arabidopsis Thaliana (Digitonin-Extracted) within 5.0Å range:
probe atom residue distance (Å) B Occ
a:Ca416

b:49.5
occ:1.00
 NE2 a:GLN165 2.3 21.1 1.0
OD1 a:ASP170 2.4 29.4 1.0
CG a:ASP170 2.8 29.4 1.0
OD2 a:ASP170 2.9 29.4 1.0
CD a:GLN165 3.3 21.1 1.0
CG a:GLN165 3.5 21.1 1.0
CB a:GLN165 3.7 21.1 1.0
O a:HOH501 3.7 36.0 1.0
CB a:ASP170 3.9 29.4 1.0
OH a:TYR161 3.9 22.4 1.0
OE2 a:GLU189 4.0 36.2 1.0
NH1 c:ARG357 4.0 26.7 1.0
OE1 a:GLU189 4.2 36.2 1.0
O a:HOH518 4.2 50.5 1.0
OE1 a:GLN165 4.4 21.1 1.0
CD a:GLU189 4.5 36.2 1.0
CZ a:TYR161 4.5 22.4 1.0
O a:HOH515 4.6 46.3 1.0
CE2 a:TYR161 4.6 22.4 1.0
O c:HOH613 4.7 47.6 1.0
CA a:GLN165 4.9 21.1 1.0
CA a:ASP170 4.9 29.4 1.0
NH2 c:ARG357 5.0 26.7 1.0

Calcium binding site 4 out of 4 in 7oui

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Calcium binding site 4 out of 4 in the Structure of C2S2M2-Type Photosystem Supercomplex From Arabidopsis Thaliana (Digitonin-Extracted)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Structure of C2S2M2-Type Photosystem Supercomplex From Arabidopsis Thaliana (Digitonin-Extracted) within 5.0Å range:
probe atom residue distance (Å) B Occ
b:Ca627

b:68.0
occ:1.00
 O b:GLU266 3.9 34.4 1.0
O b:ILE80 4.1 40.7 1.0
O b:PRO50 4.2 38.2 1.0
CB b:PRO50 4.4 38.2 1.0
CE b:MET55 4.6 33.9 1.0
OE1 b:GLU266 4.6 34.4 1.0
CG1 b:ILE80 4.7 40.7 1.0
C b:GLU266 4.7 34.4 1.0
CG b:MET55 4.7 33.9 1.0
CB b:PRO54 4.8 32.2 1.0
O b:HOH709 4.8 39.5 1.0
CB b:GLU266 4.8 34.4 1.0
CA b:PRO50 4.8 38.2 1.0
N b:MET55 4.9 33.9 1.0
CH2 b:TRP167 5.0 28.5 1.0
C b:PRO50 5.0 38.2 1.0

Reference:

A.T.Graca, M.Hall, K.Persson, W.P.Schroder. High-Resolution Model of Arabidopsis Photosystem II Reveals the Structural Consequences of Digitonin-Extraction. Sci Rep V. 11 15534 2021.
ISSN: ESSN 2045-2322
PubMed: 34330992
DOI: 10.1038/S41598-021-94914-X
Page generated: Fri Jul 19 02:40:10 2024

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