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Magnesium in PDB 6tmh: Cryo-Em Structure of Toxoplasma Gondii Mitochondrial Atp Synthase Dimer, Oscp/F1/C-Ring Model

Enzymatic activity of Cryo-Em Structure of Toxoplasma Gondii Mitochondrial Atp Synthase Dimer, Oscp/F1/C-Ring Model

All present enzymatic activity of Cryo-Em Structure of Toxoplasma Gondii Mitochondrial Atp Synthase Dimer, Oscp/F1/C-Ring Model:
7.1.2.2;

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Cryo-Em Structure of Toxoplasma Gondii Mitochondrial Atp Synthase Dimer, Oscp/F1/C-Ring Model (pdb code 6tmh). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 5 binding sites of Magnesium where determined in the Cryo-Em Structure of Toxoplasma Gondii Mitochondrial Atp Synthase Dimer, Oscp/F1/C-Ring Model, PDB code: 6tmh:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5;

Magnesium binding site 1 out of 5 in 6tmh

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Magnesium binding site 1 out of 5 in the Cryo-Em Structure of Toxoplasma Gondii Mitochondrial Atp Synthase Dimer, Oscp/F1/C-Ring Model


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Cryo-Em Structure of Toxoplasma Gondii Mitochondrial Atp Synthase Dimer, Oscp/F1/C-Ring Model within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg602

b:25.8
occ:1.00
 OG1 A:THR227 1.9 29.7 1.0
O1B A:ATP601 2.1 29.0 1.0
O1G A:ATP601 2.3 29.0 1.0
CB A:THR227 3.2 29.7 1.0
HB A:THR227 3.3 29.7 1.0
H A:THR227 3.4 29.7 1.0
PB A:ATP601 3.5 29.0 1.0
PG A:ATP601 3.6 29.0 1.0
O3B A:ATP601 3.8 29.0 1.0
HG21 A:THR227 3.8 29.7 1.0
O1A A:ATP601 4.0 29.0 1.0
CG2 A:THR227 4.0 29.7 1.0
N A:THR227 4.1 29.7 1.0
HE21 A:GLN260 4.1 30.7 1.0
CA A:THR227 4.2 29.7 1.0
O2G A:ATP601 4.3 29.0 1.0
HB2 A:LYS226 4.3 28.5 1.0
O2B A:ATP601 4.4 29.0 1.0
HG23 A:THR227 4.4 29.7 1.0
HE22 A:GLN260 4.5 30.7 1.0
HA A:THR227 4.5 29.7 1.0
O3A A:ATP601 4.6 29.0 1.0
HE2 A:LYS226 4.6 28.5 1.0
NE2 A:GLN260 4.6 30.7 1.0
O3G A:ATP601 4.7 29.0 1.0
OD1 A:ASP321 4.7 34.6 1.0
PA A:ATP601 4.7 29.0 1.0
HG22 A:THR227 4.9 29.7 1.0
OD2 A:ASP321 4.9 34.6 1.0
O2A A:ATP601 5.0 29.0 1.0

Magnesium binding site 2 out of 5 in 6tmh

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Magnesium binding site 2 out of 5 in the Cryo-Em Structure of Toxoplasma Gondii Mitochondrial Atp Synthase Dimer, Oscp/F1/C-Ring Model


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Cryo-Em Structure of Toxoplasma Gondii Mitochondrial Atp Synthase Dimer, Oscp/F1/C-Ring Model within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mg602

b:33.5
occ:1.00
 HG1 E:THR227 1.7 33.5 1.0
O1B E:ATP601 1.9 37.9 1.0
OG1 E:THR227 2.1 33.5 1.0
O2G E:ATP601 2.3 37.9 1.0
HE22 E:GLN260 2.5 34.1 1.0
HB E:THR227 3.1 33.5 1.0
CB E:THR227 3.2 33.5 1.0
H E:THR227 3.3 33.5 1.0
NE2 E:GLN260 3.3 34.1 1.0
PB E:ATP601 3.3 37.9 1.0
HE21 E:GLN260 3.5 34.1 1.0
PG E:ATP601 3.6 37.9 1.0
O3B E:ATP601 3.8 37.9 1.0
O1A E:ATP601 3.9 37.9 1.0
N E:THR227 3.9 33.5 1.0
HG21 E:THR227 4.0 33.5 1.0
HB2 E:LYS226 4.1 31.3 1.0
CA E:THR227 4.1 33.5 1.0
O2B E:ATP601 4.1 37.9 1.0
CG2 E:THR227 4.2 33.5 1.0
HE3 E:LYS226 4.2 31.3 1.0
O3A E:ATP601 4.4 37.9 1.0
CD E:GLN260 4.4 34.1 1.0
HA E:THR227 4.4 33.5 1.0
O1G E:ATP601 4.5 37.9 1.0
PA E:ATP601 4.5 37.9 1.0
O3G E:ATP601 4.6 37.9 1.0
O2A E:ATP601 4.6 37.9 1.0
OE1 E:GLN260 4.7 34.1 1.0
HG23 E:THR227 4.8 33.5 1.0
HG22 E:THR227 4.9 33.5 1.0
OD2 E:ASP321 4.9 32.2 1.0
OD1 E:ASP321 4.9 32.2 1.0
H E:LYS226 5.0 31.3 1.0

Magnesium binding site 3 out of 5 in 6tmh

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Magnesium binding site 3 out of 5 in the Cryo-Em Structure of Toxoplasma Gondii Mitochondrial Atp Synthase Dimer, Oscp/F1/C-Ring Model


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Cryo-Em Structure of Toxoplasma Gondii Mitochondrial Atp Synthase Dimer, Oscp/F1/C-Ring Model within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg602

b:20.9
occ:1.00
 OG1 C:THR227 1.9 27.6 1.0
O1G C:ATP601 2.2 29.6 1.0
O2B C:ATP601 2.3 29.6 1.0
CB C:THR227 3.1 27.6 1.0
HB C:THR227 3.2 27.6 1.0
H C:THR227 3.5 27.6 1.0
PG C:ATP601 3.5 29.6 1.0
PB C:ATP601 3.6 29.6 1.0
HG21 C:THR227 3.7 27.6 1.0
O3B C:ATP601 3.8 29.6 1.0
OD1 C:ASP321 3.9 28.9 1.0
CG2 C:THR227 3.9 27.6 1.0
O3G C:ATP601 4.1 29.6 1.0
N C:THR227 4.1 27.6 1.0
O3A C:ATP601 4.2 29.6 1.0
CA C:THR227 4.2 27.6 1.0
O1A C:ATP601 4.2 29.6 1.0
OD2 C:ASP321 4.3 28.9 1.0
HG23 C:THR227 4.3 27.6 1.0
CG C:ASP321 4.5 28.9 1.0
HB2 C:LYS226 4.5 27.1 1.0
HA C:THR227 4.6 27.6 1.0
O2G C:ATP601 4.6 29.6 1.0
HE2 C:LYS226 4.6 27.1 1.0
PA C:ATP601 4.7 29.6 1.0
HG22 C:THR227 4.7 27.6 1.0
O1B C:ATP601 4.8 29.6 1.0
HH C:TYR255 4.9 27.9 1.0
O2A C:ATP601 5.0 29.6 1.0

Magnesium binding site 4 out of 5 in 6tmh

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Magnesium binding site 4 out of 5 in the Cryo-Em Structure of Toxoplasma Gondii Mitochondrial Atp Synthase Dimer, Oscp/F1/C-Ring Model


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Cryo-Em Structure of Toxoplasma Gondii Mitochondrial Atp Synthase Dimer, Oscp/F1/C-Ring Model within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg602

b:24.6
occ:1.00
 O2B B:ADP601 1.8 31.6 1.0
HG1 B:THR234 2.0 30.1 1.0
OG1 B:THR234 2.3 30.1 1.0
O2A B:ADP601 3.3 31.6 1.0
PB B:ADP601 3.3 31.6 1.0
OE2 B:GLU263 3.5 31.6 1.0
CB B:THR234 3.6 30.1 1.0
HB B:THR234 3.7 30.1 1.0
H B:THR234 3.7 30.1 1.0
HH12 B:ARG260 4.0 29.5 1.0
O3B B:ADP601 4.1 31.6 1.0
O1B B:ADP601 4.1 31.6 1.0
O3A B:ADP601 4.1 31.6 1.0
HB2 B:LYS233 4.1 27.4 1.0
HH11 B:ARG260 4.2 29.5 1.0
NH1 B:ARG260 4.2 29.5 1.0
OD2 B:ASP335 4.2 27.9 1.0
HG21 B:THR234 4.2 30.1 1.0
CD B:GLU263 4.3 31.6 1.0
HE2 B:LYS233 4.3 27.4 1.0
N B:THR234 4.3 30.1 1.0
PA B:ADP601 4.3 31.6 1.0
OE1 B:GLU263 4.3 31.6 1.0
HD21 B:ASN336 4.3 25.4 1.0
CG2 B:THR234 4.5 30.1 1.0
CA B:THR234 4.5 30.1 1.0
HA B:THR234 4.7 30.1 1.0
HZ1 B:LYS233 4.7 27.4 1.0
HG23 B:THR234 4.8 30.1 1.0
HZ3 B:LYS233 4.8 27.4 1.0
HH21 C:ARG425 4.8 31.8 1.0
OD1 B:ASP335 4.9 27.9 1.0
CZ B:ARG260 4.9 29.5 1.0
CG B:ASP335 5.0 27.9 1.0

Magnesium binding site 5 out of 5 in 6tmh

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Magnesium binding site 5 out of 5 in the Cryo-Em Structure of Toxoplasma Gondii Mitochondrial Atp Synthase Dimer, Oscp/F1/C-Ring Model


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Cryo-Em Structure of Toxoplasma Gondii Mitochondrial Atp Synthase Dimer, Oscp/F1/C-Ring Model within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg602

b:21.2
occ:1.00
 O2B D:ADP601 2.0 31.3 1.0
HG1 D:THR234 2.2 28.4 1.0
OG1 D:THR234 2.5 28.4 1.0
PB D:ADP601 3.4 31.3 1.0
O3B D:ADP601 3.7 31.3 1.0
CB D:THR234 3.9 28.4 1.0
O2A D:ADP601 3.9 31.3 1.0
HD21 D:ASN336 4.0 25.3 1.0
HZ2 D:LYS233 4.0 26.1 1.0
H D:THR234 4.0 28.4 1.0
OD1 D:ASP335 4.1 26.5 1.0
HB D:THR234 4.1 28.4 1.0
OD2 D:ASP335 4.2 26.5 1.0
OE2 D:GLU263 4.3 31.4 1.0
O1B D:ADP601 4.3 31.3 1.0
HB2 D:LYS233 4.3 26.1 1.0
O3A D:ADP601 4.3 31.3 1.0
HG21 D:THR234 4.5 28.4 1.0
N D:THR234 4.5 28.4 1.0
OD1 D:ASN336 4.6 25.3 1.0
HZ1 D:LYS233 4.6 26.1 1.0
HH12 D:ARG260 4.6 28.8 1.0
CG D:ASP335 4.6 26.5 1.0
NZ D:LYS233 4.7 26.1 1.0
CG2 D:THR234 4.7 28.4 1.0
CA D:THR234 4.7 28.4 1.0
ND2 D:ASN336 4.7 25.3 1.0
PA D:ADP601 4.8 31.3 1.0
HE3 D:LYS233 4.9 26.1 1.0
HA D:THR234 4.9 28.4 1.0
NH1 D:ARG260 4.9 28.8 1.0
HG23 D:THR234 4.9 28.4 1.0

Reference:

A.Muhleip, R.Kock Flygaard, P.Fernandes, A.Lacombe, J.Ovciarikova, L.Sheiner, A.Amunts. Atp Synthase Hexamer Assemblies Shape Cristae of Toxoplasma Mitochondria To Be Published.
Page generated: Tue Oct 1 19:01:12 2024

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