Calcium in PDB 6trd: 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 6trd:

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 6trd). 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: 6trd:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6;

Calcium binding site 1 out of 6 in 6trd

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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:Ca801

b:9.5
occ:1.00
 OE2 B:GLU200 2.4 9.1 1.0
OE1 B:GLU200 2.6 9.1 1.0
CD B:GLU200 2.7 9.1 1.0
CD2 B:HIS205 2.8 10.1 1.0
NE2 B:HIS205 3.3 10.1 1.0
OD2 B:ASP133 3.7 8.2 1.0
CG B:GLU200 4.0 9.1 1.0
CG B:HIS205 4.0 10.1 1.0
N B:VAL206 4.2 9.8 1.0
N B:GLY207 4.2 9.9 1.0
O1D B:CLA814 4.3 9.6 1.0
CG B:ASP133 4.5 8.2 1.0
CE1 B:HIS205 4.5 10.1 1.0
OD1 B:ASP133 4.6 8.2 1.0
CA B:HIS205 4.6 10.1 1.0
CA B:GLY207 4.7 9.9 1.0
CB B:HIS205 4.8 10.1 1.0
O B:GLY127 4.8 7.3 1.0
ND1 B:HIS205 4.9 10.1 1.0
C B:HIS205 4.9 10.1 1.0

Calcium binding site 2 out of 6 in 6trd

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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:8.8
occ:1.00
 O L:PRO67 2.2 1.5 1.0
O l:PHE153 2.7 4.6 1.0
C L:PRO67 3.4 1.5 1.0
CB L:ASP70 3.5 5.1 1.0
OD2 L:ASP70 3.7 5.1 1.0
C l:PHE153 3.9 4.6 1.0
CG L:ASP70 4.1 5.1 1.0
N L:ASP70 4.2 5.1 1.0
CA L:PRO67 4.2 1.5 1.0
N L:LEU68 4.3 2.5 1.0
CA L:ASP70 4.5 5.1 1.0
CA L:LEU68 4.5 2.5 1.0
CA l:ASN154 4.5 2.6 1.0
N l:ASN154 4.7 2.6 1.0
C L:LEU68 4.7 2.5 1.0
N L:ARG69 4.7 1.4 1.0
OD1 A:ASP473 4.8 1.1 1.0
NH1 L:ARG69 5.0 1.4 1.0
CA l:PHE153 5.0 4.6 1.0
CB L:PRO67 5.0 1.5 1.0

Calcium binding site 3 out of 6 in 6trd

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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:Ca801

b:9.7
occ:1.00
 OE2 b:GLU200 2.4 5.7 1.0
OE1 b:GLU200 2.6 5.7 1.0
CD b:GLU200 2.7 5.7 1.0
CD2 b:HIS205 2.8 7.1 1.0
NE2 b:HIS205 3.3 7.1 1.0
OD2 b:ASP133 3.7 4.7 1.0
CG b:GLU200 4.0 5.7 1.0
CG b:HIS205 4.0 7.1 1.0
N b:VAL206 4.2 7.1 1.0
N b:GLY207 4.2 6.2 1.0
O1D b:CLA815 4.3 5.5 1.0
CG b:ASP133 4.5 4.7 1.0
CE1 b:HIS205 4.5 7.1 1.0
OD1 b:ASP133 4.6 4.7 1.0
CA b:HIS205 4.6 7.1 1.0
CA b:GLY207 4.7 6.2 1.0
CB b:HIS205 4.8 7.1 1.0
O b:GLY127 4.8 4.4 1.0
ND1 b:HIS205 4.9 7.1 1.0
C b:HIS205 4.9 7.1 1.0

Calcium binding site 4 out of 6 in 6trd

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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:Ca203

b:7.7
occ:1.00
 O l:PRO67 2.2 1.2 1.0
O 0:PHE153 2.6 2.8 1.0
C l:PRO67 3.4 1.2 1.0
CB l:ASP70 3.5 4.8 1.0
OD2 l:ASP70 3.7 4.8 1.0
C 0:PHE153 3.8 2.8 1.0
CG l:ASP70 4.1 4.8 1.0
N l:ASP70 4.2 4.8 1.0
CA l:PRO67 4.2 1.2 1.0
N l:LEU68 4.3 1.8 1.0
CA 0:ASN154 4.4 1.7 1.0
CA l:ASP70 4.5 4.8 1.0
CA l:LEU68 4.5 1.8 1.0
N 0:ASN154 4.5 1.7 1.0
C l:LEU68 4.7 1.8 1.0
N l:ARG69 4.7 1.5 1.0
OD1 a:ASP473 4.7 1.5 1.0
CA 0:PHE153 4.8 2.8 1.0
NH1 l:ARG69 5.0 1.5 1.0
CB l:PRO67 5.0 1.2 1.0

Calcium binding site 5 out of 6 in 6trd

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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:Ca801

b:7.7
occ:1.00
 OE2 2:GLU200 2.4 7.9 1.0
OE1 2:GLU200 2.6 7.9 1.0
CD 2:GLU200 2.7 7.9 1.0
CD2 2:HIS205 2.8 7.4 1.0
NE2 2:HIS205 3.3 7.4 1.0
OD2 2:ASP133 3.7 6.2 1.0
CG 2:GLU200 4.0 7.9 1.0
CG 2:HIS205 4.0 7.4 1.0
N 2:VAL206 4.2 8.6 1.0
N 2:GLY207 4.2 8.7 1.0
O1D 2:CLA815 4.3 10.0 1.0
CG 2:ASP133 4.5 6.2 1.0
CE1 2:HIS205 4.5 7.4 1.0
OD1 2:ASP133 4.6 6.2 1.0
CA 2:HIS205 4.6 7.4 1.0
CA 2:GLY207 4.7 8.7 1.0
CB 2:HIS205 4.8 7.4 1.0
O 2:GLY127 4.8 5.3 1.0
ND1 2:HIS205 4.9 7.4 1.0
C 2:HIS205 4.9 7.4 1.0

Calcium binding site 6 out of 6 in 6trd

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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:Ca204

b:6.7
occ:1.00
 O 0:PRO67 2.2 1.4 1.0
O L:PHE153 2.9 2.4 1.0
C 0:PRO67 3.4 1.4 1.0
CB 0:ASP70 3.5 3.9 1.0
OD2 0:ASP70 3.7 3.9 1.0
CG 0:ASP70 4.1 3.9 1.0
C L:PHE153 4.1 2.4 1.0
N 0:ASP70 4.2 3.9 1.0
CA 0:PRO67 4.2 1.4 1.0
N 0:LEU68 4.3 1.8 1.0
CA 0:ASP70 4.5 3.9 1.0
CA 0:LEU68 4.5 1.8 1.0
C 0:LEU68 4.7 1.8 1.0
N 0:ARG69 4.7 1.6 1.0
CA L:ASN154 4.8 1.7 1.0
OD1 1:ASP473 4.9 1.5 1.0
N L:ASN154 4.9 1.7 1.0
NH1 0:ARG69 5.0 1.6 1.0
CB 0:PRO67 5.0 1.4 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: Sat Dec 12 07:45:16 2020

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