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Magnesium in PDB 1h8h: Bovine Mitochondrial F1-Atpase Crystallised in the Presence of 5MM Amppnp

Enzymatic activity of Bovine Mitochondrial F1-Atpase Crystallised in the Presence of 5MM Amppnp

All present enzymatic activity of Bovine Mitochondrial F1-Atpase Crystallised in the Presence of 5MM Amppnp:
3.6.1.34;

Protein crystallography data

The structure of Bovine Mitochondrial F1-Atpase Crystallised in the Presence of 5MM Amppnp, PDB code: 1h8h was solved by K.Braig, R.I.Menz, M.G.Montgomery, A.G.W.Leslie, J.E.Walker, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 2.90
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 280.000, 107.000, 139.100, 90.00, 90.00, 90.00
R / Rfree (%) 23.6 / 29.2

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Bovine Mitochondrial F1-Atpase Crystallised in the Presence of 5MM Amppnp (pdb code 1h8h). 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 Mitochondrial F1-Atpase Crystallised in the Presence of 5MM Amppnp, PDB code: 1h8h:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5;

Magnesium binding site 1 out of 5 in 1h8h

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Magnesium binding site 1 out of 5 in the Bovine Mitochondrial F1-Atpase Crystallised in the Presence of 5MM Amppnp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Bovine Mitochondrial F1-Atpase Crystallised in the Presence of 5MM Amppnp within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg601

b:30.8
occ:1.00
 O A:HOH2023 1.9 32.0 1.0
OG1 A:THR176 2.1 27.5 1.0
O A:HOH2024 2.1 19.4 1.0
O2G A:ATP600 2.1 25.5 1.0
O2B A:ATP600 2.3 13.3 1.0
CB A:THR176 3.3 16.9 1.0
PG A:ATP600 3.4 27.3 1.0
PB A:ATP600 3.6 21.2 1.0
O3B A:ATP600 3.7 24.8 1.0
OD1 A:ASP269 4.0 35.5 1.0
N A:THR176 4.1 25.1 1.0
OD2 A:ASP269 4.1 28.3 1.0
CG2 A:THR176 4.2 18.7 1.0
CA A:THR176 4.2 24.2 1.0
O3G A:ATP600 4.3 28.3 1.0
O1G A:ATP600 4.3 31.8 1.0
O2A A:ATP600 4.4 22.2 1.0
CG A:ASP269 4.5 34.1 1.0
O3A A:ATP600 4.5 18.4 1.0
O1B A:ATP600 4.6 19.7 1.0
O1A A:ATP600 4.6 19.7 1.0
PA A:ATP600 4.8 20.9 1.0
NZ A:LYS175 4.8 38.9 1.0

Magnesium binding site 2 out of 5 in 1h8h

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Magnesium binding site 2 out of 5 in the Bovine Mitochondrial F1-Atpase Crystallised in the Presence of 5MM Amppnp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Bovine Mitochondrial F1-Atpase Crystallised in the Presence of 5MM Amppnp within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg601

b:29.4
occ:1.00
 O2G B:ATP600 2.0 29.2 1.0
OG1 B:THR176 2.1 33.9 1.0
O2B B:ATP600 2.2 22.3 1.0
O B:HOH2026 2.3 40.3 1.0
CB B:THR176 3.0 27.5 1.0
PG B:ATP600 3.4 25.4 1.0
PB B:ATP600 3.5 26.6 1.0
O3B B:ATP600 3.8 23.1 1.0
OD1 B:ASP269 3.9 37.5 1.0
N B:THR176 3.9 29.4 1.0
OD2 B:ASP269 3.9 27.9 1.0
CG2 B:THR176 4.0 34.3 1.0
O1G B:ATP600 4.0 26.3 1.0
CA B:THR176 4.1 31.2 1.0
CG B:ASP269 4.3 28.9 1.0
O3G B:ATP600 4.3 25.6 1.0
O1B B:ATP600 4.5 27.5 1.0
O B:HOH2006 4.5 40.8 1.0
O3A B:ATP600 4.5 25.5 1.0
O2A B:ATP600 4.7 21.2 1.0
O1A B:ATP600 4.9 24.0 1.0
PA B:ATP600 4.9 21.8 1.0
CB B:LYS175 4.9 31.9 1.0
NZ B:LYS175 5.0 28.6 1.0

Magnesium binding site 3 out of 5 in 1h8h

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Magnesium binding site 3 out of 5 in the Bovine Mitochondrial F1-Atpase Crystallised in the Presence of 5MM Amppnp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Bovine Mitochondrial F1-Atpase Crystallised in the Presence of 5MM Amppnp within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg601

b:23.9
occ:1.00
 O C:HOH2014 1.8 25.9 1.0
O2G C:ATP600 2.0 25.4 1.0
O2B C:ATP600 2.3 10.5 1.0
OG1 C:THR176 2.3 22.5 1.0
O C:HOH2005 2.6 30.7 1.0
CB C:THR176 2.9 15.3 1.0
PG C:ATP600 3.4 24.7 1.0
PB C:ATP600 3.6 3.9 1.0
O3B C:ATP600 3.7 16.7 1.0
N C:THR176 3.9 22.7 1.0
CG2 C:THR176 4.0 21.0 1.0
CA C:THR176 4.0 23.0 1.0
OD2 C:ASP269 4.0 22.1 1.0
O3G C:ATP600 4.1 23.9 1.0
O2A C:ATP600 4.1 14.7 1.0
O1G C:ATP600 4.3 27.0 1.0
O1A C:ATP600 4.4 15.8 1.0
O1B C:ATP600 4.4 5.6 1.0
OD1 C:ASP269 4.5 30.5 1.0
PA C:ATP600 4.6 17.3 1.0
O3A C:ATP600 4.6 14.2 1.0
CG C:ASP269 4.7 26.8 1.0

Magnesium binding site 4 out of 5 in 1h8h

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Magnesium binding site 4 out of 5 in the Bovine Mitochondrial F1-Atpase Crystallised in the Presence of 5MM Amppnp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Bovine Mitochondrial F1-Atpase Crystallised in the Presence of 5MM Amppnp within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg601

b:38.8
occ:1.00
 OG1 D:THR163 2.3 33.0 1.0
O2B D:ADP600 2.3 26.3 1.0
CB D:THR163 3.2 27.3 1.0
PB D:ADP600 3.7 24.6 1.0
NH1 D:ARG189 3.9 19.0 1.0
OD2 D:ASP256 4.0 32.7 1.0
O3B D:ADP600 4.0 27.2 1.0
OD1 D:ASP256 4.1 34.4 1.0
OE2 D:GLU192 4.1 38.1 1.0
N D:THR163 4.1 26.4 1.0
CG2 D:THR163 4.1 21.4 1.0
OE1 D:GLU192 4.2 40.5 1.0
CA D:THR163 4.3 27.3 1.0
OE1 D:GLU188 4.3 44.8 1.0
CG D:ASP256 4.5 27.6 1.0
CD D:GLU192 4.5 36.9 1.0
CD D:GLU188 4.5 41.3 1.0
O1B D:ADP600 4.6 22.1 1.0
CG D:GLU188 4.7 34.5 1.0
O3A D:ADP600 4.7 17.7 1.0
O2A D:ADP600 4.7 11.2 1.0
O1A D:ADP600 4.8 8.7 1.0
CB D:LYS162 4.9 20.6 1.0
PA D:ADP600 5.0 15.3 1.0
NH1 C:ARG373 5.0 36.9 1.0

Magnesium binding site 5 out of 5 in 1h8h

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Magnesium binding site 5 out of 5 in the Bovine Mitochondrial F1-Atpase Crystallised in the Presence of 5MM Amppnp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Bovine Mitochondrial F1-Atpase Crystallised in the Presence of 5MM Amppnp within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Mg601

b:34.8
occ:1.00
 O2G F:ATP600 2.2 24.3 1.0
O2B F:ATP600 2.2 19.8 1.0
OG1 F:THR163 2.4 20.0 1.0
O F:HOH2008 2.4 36.3 1.0
CB F:THR163 2.8 16.9 1.0
PG F:ATP600 3.4 25.5 1.0
PB F:ATP600 3.4 19.5 1.0
O2A F:ATP600 3.4 11.2 1.0
OE1 F:GLU192 3.4 44.6 1.0
O3B F:ATP600 3.6 23.3 1.0
CG2 F:THR163 3.8 20.8 1.0
CA F:THR163 4.0 23.0 1.0
N F:THR163 4.0 24.9 1.0
NH1 F:ARG189 4.0 19.4 1.0
O3G F:ATP600 4.1 21.9 1.0
NH1 B:ARG373 4.1 31.5 1.0
OE2 F:GLU192 4.2 45.2 1.0
PA F:ATP600 4.2 4.7 1.0
CD F:GLU192 4.3 42.1 1.0
O1A F:ATP600 4.3 11.2 1.0
O3A F:ATP600 4.3 15.6 1.0
O1B F:ATP600 4.4 24.0 1.0
O1G F:ATP600 4.5 26.0 1.0
OD2 F:ASP256 4.6 25.8 1.0
OE1 F:GLU188 4.7 45.1 1.0
OD1 F:ASP256 4.9 14.8 1.0

Reference:

R.I.Menz, A.G.W.Leslie, J.E.Walker. The Structure and Nucleotide Occupancy of Bovine Mitochondrial F(1)-Atpase Are Not Influenced By Crystallisation at High Concentrations of Nucleotide Febs Lett. V. 494 11 2001.
ISSN: ISSN 0014-5793
PubMed: 11297725
DOI: 10.1016/S0014-5793(01)02302-X
Page generated: Mon Dec 14 05:58:58 2020

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