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Calcium in PDB 6trc: Cryo- Em Structure of the Thermosynechococcus Elongatus Photosystem I in the Presence of Cytochrome C6

Enzymatic activity of Cryo- Em Structure of the Thermosynechococcus Elongatus Photosystem I in the Presence of Cytochrome C6

All present enzymatic activity of Cryo- Em Structure of the Thermosynechococcus Elongatus Photosystem I in the Presence of Cytochrome C6:
1.97.1.12;

Other elements in 6trc:

The structure of Cryo- Em Structure of the Thermosynechococcus Elongatus Photosystem I in the Presence of Cytochrome C6 also contains other interesting chemical elements:

Magnesium (Mg) 291 atoms
Iron (Fe) 36 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the Cryo- Em Structure of the Thermosynechococcus Elongatus Photosystem I in the Presence of Cytochrome C6 (pdb code 6trc). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 6 binding sites of Calcium where determined in the Cryo- Em Structure of the Thermosynechococcus Elongatus Photosystem I in the Presence of Cytochrome C6, PDB code: 6trc:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6;

Calcium binding site 1 out of 6 in 6trc

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Calcium binding site 1 out of 6 in the Cryo- Em Structure of the Thermosynechococcus Elongatus Photosystem I in the Presence of Cytochrome C6


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Cryo- Em Structure of the Thermosynechococcus Elongatus Photosystem I in the Presence of Cytochrome C6 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca3002

b:17.0
occ:1.00
 OE2 B:GLU200 3.2 9.6 1.0
N B:GLY207 3.9 9.3 1.0
CD B:GLU200 4.0 9.6 1.0
CA B:GLY207 4.1 9.3 1.0
OD2 B:ASP133 4.1 5.9 1.0
OD1 B:ASP133 4.1 5.9 1.0
OE1 B:GLU200 4.4 9.6 1.0
N B:VAL206 4.5 10.8 1.0
O1D B:CLA3015 4.5 8.3 1.0
CG B:ASP133 4.5 5.9 1.0
CB B:HIS205 4.7 12.4 1.0
C B:VAL206 4.9 10.8 1.0
CA B:HIS205 5.0 12.4 1.0

Calcium binding site 2 out of 6 in 6trc

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Calcium binding site 2 out of 6 in the Cryo- Em Structure of the Thermosynechococcus Elongatus Photosystem I in the Presence of Cytochrome C6


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Cryo- Em Structure of the Thermosynechococcus Elongatus Photosystem I in the Presence of Cytochrome C6 within 5.0Å range:
probe atom residue distance (Å) B Occ
L:Ca202

b:6.5
occ:1.00
 O L:PRO67 2.2 1.7 1.0
O l:PHE153 2.9 1.8 1.0
C L:PRO67 3.4 1.7 1.0
OD2 L:ASP70 3.5 3.7 1.0
C l:PHE153 3.6 1.8 1.0
CB L:ASP70 3.9 3.7 1.0
CA L:PRO67 4.1 1.7 1.0
CG L:ASP70 4.1 3.7 1.0
CB l:PHE153 4.3 1.8 1.0
CA l:PHE153 4.3 1.8 1.0
N l:ASN154 4.3 1.3 1.0
N L:LEU68 4.4 2.4 1.0
CA l:ASN154 4.5 1.3 1.0
CA L:LEU68 4.7 2.4 1.0
N L:ASP70 4.7 3.7 1.0
OD1 l:ASN154 4.7 1.3 1.0
CB L:PRO67 4.7 1.7 1.0
OD1 A:ASP473 4.8 1.2 1.0
CA L:ASP70 4.9 3.7 1.0

Calcium binding site 3 out of 6 in 6trc

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Calcium binding site 3 out of 6 in the Cryo- Em Structure of the Thermosynechococcus Elongatus Photosystem I in the Presence of Cytochrome C6


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Cryo- Em Structure of the Thermosynechococcus Elongatus Photosystem I in the Presence of Cytochrome C6 within 5.0Å range:
probe atom residue distance (Å) B Occ
b:Ca3002

b:13.2
occ:1.00
 OE2 b:GLU200 3.2 9.9 1.0
N b:GLY207 3.9 9.4 1.0
CD b:GLU200 4.0 9.9 1.0
CA b:GLY207 4.1 9.4 1.0
OD2 b:ASP133 4.1 6.2 1.0
OD1 b:ASP133 4.1 6.2 1.0
OE1 b:GLU200 4.4 9.9 1.0
N b:VAL206 4.5 10.1 1.0
O1D b:CLA3015 4.5 8.2 1.0
CG b:ASP133 4.5 6.2 1.0
CB b:HIS205 4.7 11.9 1.0
C b:VAL206 4.9 10.1 1.0
CA b:HIS205 5.0 11.9 1.0

Calcium binding site 4 out of 6 in 6trc

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Calcium binding site 4 out of 6 in the Cryo- Em Structure of the Thermosynechococcus Elongatus Photosystem I in the Presence of Cytochrome C6


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Cryo- Em Structure of the Thermosynechococcus Elongatus Photosystem I in the Presence of Cytochrome C6 within 5.0Å range:
probe atom residue distance (Å) B Occ
l:Ca205

b:8.6
occ:1.00
 O l:PRO67 2.2 1.6 1.0
O 0:PHE153 3.0 1.7 1.0
C l:PRO67 3.4 1.6 1.0
OD2 l:ASP70 3.5 3.5 1.0
C 0:PHE153 3.6 1.7 1.0
CB l:ASP70 3.9 3.5 1.0
CA l:PRO67 4.1 1.6 1.0
CG l:ASP70 4.1 3.5 1.0
CB 0:PHE153 4.3 1.7 1.0
CA 0:PHE153 4.3 1.7 1.0
N 0:ASN154 4.3 0.9 1.0
N l:LEU68 4.4 2.0 1.0
CA 0:ASN154 4.5 0.9 1.0
CA l:LEU68 4.7 2.0 1.0
N l:ASP70 4.7 3.5 1.0
CB l:PRO67 4.7 1.6 1.0
OD1 0:ASN154 4.7 0.9 1.0
OD1 a:ASP473 4.8 1.4 1.0
CA l:ASP70 4.9 3.5 1.0

Calcium binding site 5 out of 6 in 6trc

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Calcium binding site 5 out of 6 in the Cryo- Em Structure of the Thermosynechococcus Elongatus Photosystem I in the Presence of Cytochrome C6


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Cryo- Em Structure of the Thermosynechococcus Elongatus Photosystem I in the Presence of Cytochrome C6 within 5.0Å range:
probe atom residue distance (Å) B Occ
2:Ca3002

b:12.7
occ:1.00
 OE2 2:GLU200 3.2 10.0 1.0
N 2:GLY207 3.9 9.5 1.0
CD 2:GLU200 4.0 10.0 1.0
CA 2:GLY207 4.1 9.5 1.0
OD2 2:ASP133 4.1 6.0 1.0
OD1 2:ASP133 4.1 6.0 1.0
OE1 2:GLU200 4.4 10.0 1.0
N 2:VAL206 4.5 10.0 1.0
O1D 2:CLA3015 4.5 8.2 1.0
CG 2:ASP133 4.5 6.0 1.0
CB 2:HIS205 4.7 11.5 1.0
C 2:VAL206 4.9 10.0 1.0
CA 2:HIS205 5.0 11.5 1.0

Calcium binding site 6 out of 6 in 6trc

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Calcium binding site 6 out of 6 in the Cryo- Em Structure of the Thermosynechococcus Elongatus Photosystem I in the Presence of Cytochrome C6


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of Cryo- Em Structure of the Thermosynechococcus Elongatus Photosystem I in the Presence of Cytochrome C6 within 5.0Å range:
probe atom residue distance (Å) B Occ
0:Ca206

b:8.8
occ:1.00
 O 0:PRO67 2.2 1.6 1.0
O L:PHE153 2.9 1.9 1.0
C 0:PRO67 3.4 1.6 1.0
OD2 0:ASP70 3.5 4.4 1.0
C L:PHE153 3.6 1.9 1.0
CB 0:ASP70 3.9 4.4 1.0
CA 0:PRO67 4.1 1.6 1.0
CG 0:ASP70 4.1 4.4 1.0
CB L:PHE153 4.3 1.9 1.0
CA L:PHE153 4.3 1.9 1.0
N L:ASN154 4.3 1.4 1.0
N 0:LEU68 4.4 2.2 1.0
CA L:ASN154 4.5 1.4 1.0
CA 0:LEU68 4.7 2.2 1.0
N 0:ASP70 4.7 4.4 1.0
OD1 L:ASN154 4.7 1.4 1.0
CB 0:PRO67 4.7 1.6 1.0
OD1 1:ASP473 4.9 1.1 1.0
CA 0:ASP70 4.9 4.4 1.0

Reference:

A.Koelsch, C.Radon, M.Golub, A.Baumert, J.Burger, T.Miehlke, F.Lisdat, A.Feoktystov, J.Pieper, A.Zouni, P.Wendler. Current Limits of Structural Biology: the Transient Interaction Between Cytochrome C6 and Photosystem I Curr.Opin.Struct.Biol. V. 2 171 2020.
ISSN: ISSN 0959-440X
DOI: 10.1016/J.CRSTBI.2020.08.003
Page generated: Tue Jul 16 15:27:19 2024

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