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Magnesium in PDB 6b8h: Mosaic Model of Yeast Mitochondrial Atp Synthase Monomer

Enzymatic activity of Mosaic Model of Yeast Mitochondrial Atp Synthase Monomer

All present enzymatic activity of Mosaic Model of Yeast Mitochondrial Atp Synthase Monomer:
3.6.3.14;

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Mosaic Model of Yeast Mitochondrial Atp Synthase Monomer (pdb code 6b8h). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 10 binding sites of Magnesium where determined in the Mosaic Model of Yeast Mitochondrial Atp Synthase Monomer, PDB code: 6b8h:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 10 in 6b8h

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Magnesium binding site 1 out of 10 in the Mosaic Model of Yeast Mitochondrial Atp Synthase Monomer


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Mosaic Model of Yeast Mitochondrial Atp Synthase Monomer within 5.0Å range:
probe atom residue distance (Å) B Occ
K:Mg602

b:66.8
occ:1.00
 O2B K:ANP601 2.0 60.6 1.0
O1G K:ANP601 2.0 79.7 1.0
OG1 K:THR178 2.1 70.5 1.0
PG K:ANP601 3.1 80.3 1.0
CB K:THR178 3.3 67.6 1.0
PB K:ANP601 3.3 68.8 1.0
O2G K:ANP601 3.4 88.8 1.0
N3B K:ANP601 3.7 70.2 1.0
O1B K:ANP601 4.1 65.4 1.0
CG2 K:THR178 4.1 68.8 1.0
OD1 K:ASP271 4.2 85.2 1.0
O2A K:ANP601 4.2 68.3 1.0
OD2 K:ASP271 4.3 86.0 1.0
CA K:THR178 4.4 68.2 1.0
N K:THR178 4.4 69.1 1.0
O3A K:ANP601 4.5 72.5 1.0
O3G K:ANP601 4.5 82.7 1.0
O1A K:ANP601 4.6 66.6 1.0
CG K:ASP271 4.6 84.2 1.0
PA K:ANP601 4.7 63.7 1.0

Magnesium binding site 2 out of 10 in 6b8h

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Magnesium binding site 2 out of 10 in the Mosaic Model of Yeast Mitochondrial Atp Synthase Monomer


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Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Mosaic Model of Yeast Mitochondrial Atp Synthase Monomer within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg602

b:86.4
occ:1.00
 O2G B:ANP601 1.8 0.2 1.0
OG1 B:THR178 1.9 0.5 1.0
O2B B:ANP601 2.6 0.3 1.0
CB B:THR178 3.1 0.9 1.0
PG B:ANP601 3.3 0.7 1.0
O2A B:ANP601 3.4 0.2 1.0
PB B:ANP601 3.8 0.3 1.0
N3B B:ANP601 4.0 0.1 1.0
N B:THR178 4.0 0.2 1.0
CG2 B:THR178 4.1 0.2 1.0
O1G B:ANP601 4.1 0.4 1.0
CA B:THR178 4.1 0.1 1.0
OD2 B:ASP271 4.1 0.6 1.0
PA B:ANP601 4.4 0.8 1.0
O3G B:ANP601 4.4 0.8 1.0
O1A B:ANP601 4.5 0.7 1.0
O3A B:ANP601 4.7 0.3 1.0
OD1 B:ASP271 4.7 0.3 1.0
CG B:ASP271 4.9 0.2 1.0

Magnesium binding site 3 out of 10 in 6b8h

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Magnesium binding site 3 out of 10 in the Mosaic Model of Yeast Mitochondrial Atp Synthase Monomer


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Mosaic Model of Yeast Mitochondrial Atp Synthase Monomer within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg602

b:80.4
occ:1.00
 O2G C:ANP601 1.8 77.4 1.0
OG1 C:THR178 2.0 61.9 1.0
O2B C:ANP601 2.1 63.0 1.0
PG C:ANP601 3.0 74.4 1.0
CB C:THR178 3.1 60.2 1.0
PB C:ANP601 3.4 59.4 1.0
O3G C:ANP601 3.5 80.9 1.0
N3B C:ANP601 3.7 70.2 1.0
O2A C:ANP601 3.8 72.3 1.0
OD2 C:ASP271 4.0 71.4 1.0
CG2 C:THR178 4.0 51.4 1.0
N C:THR178 4.0 59.2 1.0
CA C:THR178 4.1 60.8 1.0
OD1 C:ASP271 4.2 75.6 1.0
O1B C:ANP601 4.3 51.6 1.0
O1G C:ANP601 4.4 83.0 1.0
CG C:ASP271 4.6 72.2 1.0
O3A C:ANP601 4.6 64.6 1.0
PA C:ANP601 4.7 69.9 1.0

Magnesium binding site 4 out of 10 in 6b8h

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Magnesium binding site 4 out of 10 in the Mosaic Model of Yeast Mitochondrial Atp Synthase Monomer


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Mosaic Model of Yeast Mitochondrial Atp Synthase Monomer within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg502

b:71.6
occ:1.00
 O2G D:ANP501 1.8 0.3 1.0
OG1 D:THR164 2.1 70.0 1.0
O2B D:ANP501 2.3 75.0 1.0
CB D:THR164 2.8 71.6 1.0
PG D:ANP501 2.9 0.2 1.0
N3B D:ANP501 3.0 96.2 1.0
OE2 D:GLU193 3.2 88.9 1.0
PB D:ANP501 3.3 70.5 1.0
O2A D:ANP501 3.4 72.8 1.0
OE1 D:GLU189 3.4 92.2 1.0
NH1 D:ARG190 3.6 80.9 1.0
N D:THR164 3.8 71.4 1.0
CG2 D:THR164 3.8 72.2 1.0
CA D:THR164 3.9 69.7 1.0
CD D:GLU193 4.0 85.4 1.0
O3G D:ANP501 4.0 0.5 1.0
O1G D:ANP501 4.1 0.2 1.0
PA D:ANP501 4.1 67.8 1.0
OE1 D:GLU193 4.1 94.2 1.0
O3A D:ANP501 4.2 70.8 1.0
O1A D:ANP501 4.2 69.1 1.0
NH1 C:ARG375 4.4 97.0 1.0
CD D:GLU189 4.4 95.0 1.0
O1B D:ANP501 4.5 71.2 1.0
OD2 D:ASP256 4.7 90.5 1.0
CZ D:ARG190 4.9 73.0 1.0
OD1 D:ASP256 5.0 87.8 1.0

Magnesium binding site 5 out of 10 in 6b8h

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Magnesium binding site 5 out of 10 in the Mosaic Model of Yeast Mitochondrial Atp Synthase Monomer


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Mosaic Model of Yeast Mitochondrial Atp Synthase Monomer within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Mg502

b:53.0
occ:1.00
 O2G F:ANP501 1.6 58.5 1.0
OG1 F:THR164 1.8 61.0 1.0
O2B F:ANP501 2.3 39.6 1.0
OE1 F:GLU189 2.8 0.1 1.0
CB F:THR164 2.9 66.1 1.0
PG F:ANP501 3.1 72.1 1.0
PB F:ANP501 3.3 52.0 1.0
N3B F:ANP501 3.4 56.6 1.0
OE2 F:GLU193 3.6 0.2 1.0
CD F:GLU189 3.7 0.9 1.0
N F:THR164 3.9 61.5 1.0
NH1 F:ARG190 3.9 92.4 1.0
CG2 F:THR164 3.9 69.8 1.0
CA F:THR164 4.0 65.8 1.0
O1A F:ANP501 4.0 49.8 1.0
O1G F:ANP501 4.1 75.7 1.0
OE2 F:GLU189 4.2 0.9 1.0
CE F:LYS163 4.2 41.4 1.0
OE1 F:GLU193 4.2 1.0 1.0
O3G F:ANP501 4.3 72.5 1.0
O3A F:ANP501 4.3 61.7 1.0
CD F:GLU193 4.3 98.0 1.0
OD1 F:ASP256 4.4 0.7 1.0
NH1 B:ARG375 4.4 71.8 1.0
PA F:ANP501 4.5 61.9 1.0
O1B F:ANP501 4.6 59.7 1.0
NZ F:LYS163 4.7 49.2 1.0
O2A F:ANP501 4.7 55.5 1.0
CG F:GLU189 4.8 0.6 1.0
OD2 F:ASP256 4.8 94.7 1.0

Magnesium binding site 6 out of 10 in 6b8h

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Magnesium binding site 6 out of 10 in the Mosaic Model of Yeast Mitochondrial Atp Synthase Monomer


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Mosaic Model of Yeast Mitochondrial Atp Synthase Monomer within 5.0Å range:
probe atom residue distance (Å) B Occ
n:Mg602

b:66.8
occ:1.00
 O2B n:ANP601 2.0 60.6 1.0
O1G n:ANP601 2.0 79.7 1.0
OG1 n:THR178 2.1 70.5 1.0
PG n:ANP601 3.1 80.3 1.0
CB n:THR178 3.3 67.6 1.0
PB n:ANP601 3.3 68.8 1.0
O2G n:ANP601 3.4 88.8 1.0
N3B n:ANP601 3.7 70.2 1.0
O1B n:ANP601 4.1 65.4 1.0
CG2 n:THR178 4.1 68.8 1.0
OD1 n:ASP271 4.2 85.2 1.0
O2A n:ANP601 4.2 68.3 1.0
OD2 n:ASP271 4.3 86.0 1.0
CA n:THR178 4.4 68.2 1.0
N n:THR178 4.4 69.1 1.0
O3A n:ANP601 4.5 72.5 1.0
O3G n:ANP601 4.5 82.7 1.0
O1A n:ANP601 4.6 66.6 1.0
CG n:ASP271 4.6 84.2 1.0
PA n:ANP601 4.7 63.7 1.0

Magnesium binding site 7 out of 10 in 6b8h

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Magnesium binding site 7 out of 10 in the Mosaic Model of Yeast Mitochondrial Atp Synthase Monomer


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Mosaic Model of Yeast Mitochondrial Atp Synthase Monomer within 5.0Å range:
probe atom residue distance (Å) B Occ
W:Mg602

b:86.4
occ:1.00
 O2G W:ANP601 1.8 0.2 1.0
OG1 W:THR178 1.9 0.5 1.0
O2B W:ANP601 2.6 0.3 1.0
CB W:THR178 3.1 0.9 1.0
PG W:ANP601 3.3 0.7 1.0
O2A W:ANP601 3.4 0.2 1.0
PB W:ANP601 3.9 0.3 1.0
N3B W:ANP601 4.0 0.1 1.0
N W:THR178 4.0 0.2 1.0
CG2 W:THR178 4.1 0.2 1.0
O1G W:ANP601 4.1 0.4 1.0
CA W:THR178 4.1 0.1 1.0
OD2 W:ASP271 4.1 0.6 1.0
PA W:ANP601 4.4 0.8 1.0
O3G W:ANP601 4.4 0.8 1.0
O1A W:ANP601 4.5 0.7 1.0
O3A W:ANP601 4.7 0.3 1.0
OD1 W:ASP271 4.7 0.3 1.0
CG W:ASP271 4.9 0.2 1.0

Magnesium binding site 8 out of 10 in 6b8h

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Magnesium binding site 8 out of 10 in the Mosaic Model of Yeast Mitochondrial Atp Synthase Monomer


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Mosaic Model of Yeast Mitochondrial Atp Synthase Monomer within 5.0Å range:
probe atom residue distance (Å) B Occ
X:Mg602

b:80.4
occ:1.00
 O2G X:ANP601 1.8 77.4 1.0
OG1 X:THR178 2.0 61.9 1.0
O2B X:ANP601 2.1 63.0 1.0
PG X:ANP601 3.0 74.4 1.0
CB X:THR178 3.1 60.2 1.0
PB X:ANP601 3.4 59.4 1.0
O3G X:ANP601 3.5 80.9 1.0
N3B X:ANP601 3.7 70.2 1.0
O2A X:ANP601 3.8 72.3 1.0
OD2 X:ASP271 4.0 71.4 1.0
CG2 X:THR178 4.0 51.4 1.0
N X:THR178 4.0 59.2 1.0
CA X:THR178 4.1 60.8 1.0
OD1 X:ASP271 4.2 75.6 1.0
O1B X:ANP601 4.3 51.6 1.0
O1G X:ANP601 4.4 83.0 1.0
CG X:ASP271 4.6 72.2 1.0
O3A X:ANP601 4.6 64.6 1.0
PA X:ANP601 4.7 69.9 1.0

Magnesium binding site 9 out of 10 in 6b8h

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Magnesium binding site 9 out of 10 in the Mosaic Model of Yeast Mitochondrial Atp Synthase Monomer


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Mosaic Model of Yeast Mitochondrial Atp Synthase Monomer within 5.0Å range:
probe atom residue distance (Å) B Occ
Y:Mg502

b:71.6
occ:1.00
 O2G Y:ANP501 1.8 0.3 1.0
OG1 Y:THR164 2.1 70.0 1.0
O2B Y:ANP501 2.3 75.0 1.0
CB Y:THR164 2.8 71.6 1.0
PG Y:ANP501 2.9 0.2 1.0
N3B Y:ANP501 3.0 96.2 1.0
OE2 Y:GLU193 3.2 88.9 1.0
PB Y:ANP501 3.3 70.5 1.0
O2A Y:ANP501 3.4 72.8 1.0
OE1 Y:GLU189 3.4 92.2 1.0
NH1 Y:ARG190 3.6 80.9 1.0
N Y:THR164 3.8 71.4 1.0
CG2 Y:THR164 3.9 72.2 1.0
CA Y:THR164 3.9 69.7 1.0
CD Y:GLU193 4.0 85.4 1.0
O3G Y:ANP501 4.0 0.5 1.0
O1G Y:ANP501 4.1 0.2 1.0
PA Y:ANP501 4.1 67.8 1.0
OE1 Y:GLU193 4.1 94.2 1.0
O3A Y:ANP501 4.2 70.8 1.0
O1A Y:ANP501 4.2 69.1 1.0
NH1 X:ARG375 4.4 97.0 1.0
CD Y:GLU189 4.4 95.0 1.0
O1B Y:ANP501 4.5 71.2 1.0
OD2 Y:ASP256 4.7 90.5 1.0
CZ Y:ARG190 4.9 73.0 1.0
OD1 Y:ASP256 5.0 87.8 1.0

Magnesium binding site 10 out of 10 in 6b8h

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Magnesium binding site 10 out of 10 in the Mosaic Model of Yeast Mitochondrial Atp Synthase Monomer


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of Mosaic Model of Yeast Mitochondrial Atp Synthase Monomer within 5.0Å range:
probe atom residue distance (Å) B Occ
c:Mg502

b:53.0
occ:1.00
 O2G c:ANP501 1.6 58.5 1.0
OG1 c:THR164 1.8 61.0 1.0
O2B c:ANP501 2.3 39.6 1.0
OE1 c:GLU189 2.8 0.1 1.0
CB c:THR164 2.9 66.1 1.0
PG c:ANP501 3.1 72.1 1.0
PB c:ANP501 3.3 52.0 1.0
N3B c:ANP501 3.4 56.6 1.0
OE2 c:GLU193 3.6 0.2 1.0
CD c:GLU189 3.7 0.9 1.0
N c:THR164 3.9 61.5 1.0
NH1 c:ARG190 3.9 92.4 1.0
CG2 c:THR164 3.9 69.8 1.0
CA c:THR164 4.0 65.8 1.0
O1A c:ANP501 4.0 49.8 1.0
O1G c:ANP501 4.1 75.7 1.0
OE2 c:GLU189 4.2 0.9 1.0
CE c:LYS163 4.2 41.4 1.0
OE1 c:GLU193 4.2 1.0 1.0
O3G c:ANP501 4.3 72.5 1.0
O3A c:ANP501 4.3 61.7 1.0
CD c:GLU193 4.3 98.0 1.0
OD1 c:ASP256 4.4 0.7 1.0
NH1 W:ARG375 4.4 71.8 1.0
PA c:ANP501 4.5 61.9 1.0
O1B c:ANP501 4.6 59.7 1.0
NZ c:LYS163 4.7 49.2 1.0
O2A c:ANP501 4.7 55.5 1.0
CG c:GLU189 4.8 0.6 1.0
OD2 c:ASP256 4.8 94.7 1.0

Reference:

H.Guo, S.A.Bueler, J.L.Rubinstein. Atomic Model For the Dimeric Fo Region of Mitochondrial Atp Synthase. Science V. 358 936 2017.
ISSN: ESSN 1095-9203
PubMed: 29074581
DOI: 10.1126/SCIENCE.AAO4815
Page generated: Mon Sep 30 19:38:14 2024

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