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Magnesium in PDB 6yy0: Bovine Atp Synthase F1-Peripheral Stalk Domain, State 1

Enzymatic activity of Bovine Atp Synthase F1-Peripheral Stalk Domain, State 1

All present enzymatic activity of Bovine Atp Synthase F1-Peripheral Stalk Domain, State 1:
7.1.2.2;

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Bovine Atp Synthase F1-Peripheral Stalk Domain, State 1 (pdb code 6yy0). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 5 binding sites of Magnesium where determined in the Bovine Atp Synthase F1-Peripheral Stalk Domain, State 1, PDB code: 6yy0:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5;

Magnesium binding site 1 out of 5 in 6yy0

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Magnesium binding site 1 out of 5 in the Bovine Atp Synthase F1-Peripheral Stalk Domain, State 1


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Bovine Atp Synthase F1-Peripheral Stalk Domain, State 1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg601

b:24.2
occ:1.00
 O A:HOH702 2.2 27.4 1.0
O2B A:ATP600 2.2 34.6 1.0
OG1 A:THR176 2.2 22.9 1.0
O A:HOH703 2.2 18.6 1.0
O A:HOH701 2.2 27.4 1.0
O2G A:ATP600 2.2 34.6 0.8
HB A:THR176 2.9 22.9 1.0
CB A:THR176 3.1 22.9 1.0
PG A:ATP600 3.1 34.6 0.8
O3G A:ATP600 3.4 34.6 0.8
PB A:ATP600 3.4 34.6 1.0
O3B A:ATP600 3.4 34.6 1.0
H A:THR176 3.5 22.9 1.0
HG21 A:THR176 3.8 22.9 1.0
CG2 A:THR176 4.0 22.9 1.0
O1A A:ATP600 4.1 34.6 1.0
N A:THR176 4.1 22.9 1.0
CA A:THR176 4.2 22.9 1.0
O1B A:ATP600 4.4 34.6 1.0
O3A A:ATP600 4.5 34.6 1.0
OD2 A:ASP269 4.5 20.9 1.0
O1G A:ATP600 4.5 34.6 0.8
HE2 A:LYS175 4.6 22.5 1.0
HA A:THR176 4.6 22.9 1.0
PA A:ATP600 4.6 34.6 1.0
HG22 A:THR176 4.6 22.9 1.0
HG23 A:THR176 4.6 22.9 1.0
HB2 A:LYS175 4.7 22.5 1.0
HE22 A:GLN208 4.7 22.6 1.0
O2A A:ATP600 4.8 34.6 1.0
OD1 A:ASP269 5.0 20.9 1.0

Magnesium binding site 2 out of 5 in 6yy0

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Magnesium binding site 2 out of 5 in the Bovine Atp Synthase F1-Peripheral Stalk Domain, State 1


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Bovine Atp Synthase F1-Peripheral Stalk Domain, State 1 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg601

b:31.0
occ:1.00
 O2B B:ATP600 2.2 28.5 1.0
O B:HOH702 2.2 31.5 1.0
O B:HOH701 2.2 31.6 1.0
O2G B:ATP600 2.2 28.5 1.0
OG1 B:THR176 2.2 25.6 1.0
O B:HOH703 2.2 20.4 1.0
HB B:THR176 2.9 25.6 1.0
CB B:THR176 3.1 25.6 1.0
PB B:ATP600 3.3 28.5 1.0
PG B:ATP600 3.4 28.5 1.0
H B:THR176 3.5 25.6 1.0
O3B B:ATP600 3.6 28.5 1.0
HG21 B:THR176 3.8 25.6 1.0
O2A B:ATP600 4.0 28.5 1.0
CG2 B:THR176 4.1 25.6 1.0
O1G B:ATP600 4.1 28.5 1.0
O1B B:ATP600 4.1 28.5 1.0
N B:THR176 4.2 25.6 1.0
CA B:THR176 4.2 25.6 1.0
OD1 B:ASP269 4.2 21.4 1.0
OD2 B:ASP269 4.4 21.4 1.0
HA B:THR176 4.5 25.6 1.0
O3A B:ATP600 4.6 28.5 1.0
O3G B:ATP600 4.6 28.5 1.0
HG22 B:THR176 4.7 25.6 1.0
HG23 B:THR176 4.7 25.6 1.0
HG21 B:THR212 4.7 27.1 1.0
PA B:ATP600 4.7 28.5 1.0
HB2 B:LYS175 4.8 23.8 1.0
CG B:ASP269 4.8 21.4 1.0
OE1 B:GLN208 4.8 24.3 1.0

Magnesium binding site 3 out of 5 in 6yy0

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Magnesium binding site 3 out of 5 in the Bovine Atp Synthase F1-Peripheral Stalk Domain, State 1


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Bovine Atp Synthase F1-Peripheral Stalk Domain, State 1 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg601

b:20.8
occ:1.00
 OG1 C:THR176 2.2 21.3 1.0
O C:HOH702 2.2 30.2 1.0
O C:HOH703 2.2 16.3 1.0
O2B C:ATP600 2.2 25.3 1.0
O C:HOH701 2.2 27.2 1.0
O2G C:ATP600 2.2 25.3 0.8
HB C:THR176 2.9 21.3 1.0
CB C:THR176 3.1 21.3 1.0
PG C:ATP600 3.2 25.3 0.8
PB C:ATP600 3.4 25.3 1.0
O3B C:ATP600 3.4 25.3 1.0
H C:THR176 3.5 21.3 1.0
O3G C:ATP600 3.6 25.3 0.8
O2A C:ATP600 3.6 25.3 1.0
HG21 C:THR176 3.7 21.3 1.0
CG2 C:THR176 4.0 21.3 1.0
OE1 C:GLN208 4.1 23.2 1.0
N C:THR176 4.2 21.3 1.0
CA C:THR176 4.2 21.3 1.0
O3A C:ATP600 4.4 25.3 1.0
O1B C:ATP600 4.4 25.3 1.0
PA C:ATP600 4.5 25.3 1.0
OD1 C:ASP269 4.5 19.2 1.0
O1G C:ATP600 4.6 25.3 0.8
HG22 C:THR176 4.6 21.3 1.0
HA C:THR176 4.6 21.3 1.0
HG23 C:THR176 4.6 21.3 1.0
OD2 C:ASP269 4.6 19.2 1.0
HB2 C:LYS175 4.8 21.3 1.0
HG21 C:THR212 4.9 23.7 1.0
O1A C:ATP600 4.9 25.3 1.0

Magnesium binding site 4 out of 5 in 6yy0

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Magnesium binding site 4 out of 5 in the Bovine Atp Synthase F1-Peripheral Stalk Domain, State 1


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Bovine Atp Synthase F1-Peripheral Stalk Domain, State 1 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg601

b:22.3
occ:1.00
 O D:HOH701 2.2 31.2 1.0
O2B D:ADP600 2.2 26.6 1.0
O D:HOH703 2.2 18.3 1.0
OG1 D:THR167 2.2 23.2 1.0
O D:HOH702 2.2 24.7 1.0
O D:HOH704 2.2 26.7 1.0
HH12 D:ARG193 2.9 23.7 1.0
CB D:THR167 3.4 23.2 1.0
HB D:THR167 3.5 23.2 1.0
OE1 D:GLU196 3.6 26.6 1.0
NH1 D:ARG193 3.6 23.7 1.0
HH11 D:ARG193 3.6 23.7 1.0
PB D:ADP600 3.7 26.6 1.0
OE2 D:GLU196 3.7 26.6 1.0
H D:THR167 3.8 23.2 1.0
CD D:GLU196 4.1 26.6 1.0
HG21 D:THR167 4.1 23.2 1.0
OD2 D:ASP260 4.3 20.1 1.0
O3A D:ADP600 4.3 26.6 1.0
CG2 D:THR167 4.3 23.2 1.0
N D:THR167 4.4 23.2 1.0
HB2 D:LYS166 4.4 21.4 1.0
CA D:THR167 4.4 23.2 1.0
O3B D:ADP600 4.4 26.6 1.0
HE2 D:LYS166 4.4 21.4 1.0
O2A D:ADP600 4.5 26.6 1.0
HD21 D:ASN261 4.5 19.6 1.0
HA D:THR167 4.5 23.2 1.0
OD1 D:ASN261 4.6 19.6 1.0
O1B D:ADP600 4.6 26.6 1.0
OD1 D:ASP260 4.6 20.1 1.0
HH22 D:ARG193 4.7 23.7 1.0
HB2 D:GLU192 4.8 25.8 1.0
CZ D:ARG193 4.8 23.7 1.0
HG23 D:THR167 4.8 23.2 1.0
PA D:ADP600 4.8 26.6 1.0
CG D:ASP260 4.9 20.1 1.0
OE1 D:GLU192 4.9 25.8 1.0

Magnesium binding site 5 out of 5 in 6yy0

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Magnesium binding site 5 out of 5 in the Bovine Atp Synthase F1-Peripheral Stalk Domain, State 1


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Bovine Atp Synthase F1-Peripheral Stalk Domain, State 1 within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Mg601

b:18.9
occ:1.00
 OG1 F:THR167 2.2 22.6 1.0
O F:HOH703 2.2 16.4 1.0
O F:HOH704 2.2 17.7 1.0
O2B F:ADP600 2.2 25.6 1.0
O F:HOH701 2.2 23.9 1.0
O F:HOH702 2.2 31.8 1.0
HB F:THR167 2.9 22.6 1.0
HH12 F:ARG193 3.0 23.0 1.0
CB F:THR167 3.1 22.6 1.0
PB F:ADP600 3.3 25.6 1.0
O3B F:ADP600 3.4 25.6 1.0
OE2 F:GLU196 3.5 24.8 1.0
HH11 F:ARG193 3.6 23.0 1.0
NH1 F:ARG193 3.6 23.0 1.0
H F:THR167 3.7 22.6 1.0
OE1 F:GLU196 3.7 24.8 1.0
HG21 F:THR167 3.8 22.6 1.0
O3A F:ADP600 4.0 25.6 1.0
CD F:GLU196 4.0 24.8 1.0
O2A F:ADP600 4.0 25.6 1.0
CG2 F:THR167 4.1 22.6 1.0
N F:THR167 4.2 22.6 1.0
CA F:THR167 4.2 22.6 1.0
OD2 F:ASP260 4.4 21.4 1.0
HB2 F:LYS166 4.4 19.9 1.0
HA F:THR167 4.5 22.6 1.0
PA F:ADP600 4.5 25.6 1.0
O1B F:ADP600 4.6 25.6 1.0
HE2 F:LYS166 4.6 19.9 1.0
HG22 F:THR167 4.7 22.6 1.0
HG23 F:THR167 4.7 22.6 1.0
HB2 F:GLU192 4.7 23.5 1.0
OD1 F:ASP260 4.8 21.4 1.0
CZ F:ARG193 4.8 23.0 1.0
OE2 F:GLU192 4.9 23.5 1.0
O1A F:ADP600 4.9 25.6 1.0
HH22 F:ARG193 4.9 23.0 1.0

Reference:

T.E.Spikes, M.G.Montgomery, J.E.Walker. Structure of the Dimeric Atp Synthase From Bovine Mitochondria. Proc.Natl.Acad.Sci.Usa V. 117 23519 2020.
ISSN: ESSN 1091-6490
PubMed: 32900941
DOI: 10.1073/PNAS.2013998117
Page generated: Wed Oct 2 02:00:05 2024

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