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Magnesium in PDB 3oee: Structure of Four Mutant Forms of Yeast F1 Atpase: Alpha-F405S

Enzymatic activity of Structure of Four Mutant Forms of Yeast F1 Atpase: Alpha-F405S

All present enzymatic activity of Structure of Four Mutant Forms of Yeast F1 Atpase: Alpha-F405S:
3.6.3.14;

Protein crystallography data

The structure of Structure of Four Mutant Forms of Yeast F1 Atpase: Alpha-F405S, PDB code: 3oee was solved by D.Arsenieva, J.Symersky, Y.Wang, V.Pagadala, D.M.Mueller, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 2.74
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 110.430, 288.580, 187.170, 90.00, 101.37, 90.00
R / Rfree (%) 21.2 / 25.9

Magnesium Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 15;

Binding sites:

The binding sites of Magnesium atom in the Structure of Four Mutant Forms of Yeast F1 Atpase: Alpha-F405S (pdb code 3oee). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 15 binding sites of Magnesium where determined in the Structure of Four Mutant Forms of Yeast F1 Atpase: Alpha-F405S, PDB code: 3oee:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 15 in 3oee

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Magnesium binding site 1 out of 15 in the Structure of Four Mutant Forms of Yeast F1 Atpase: Alpha-F405S


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of Four Mutant Forms of Yeast F1 Atpase: Alpha-F405S within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg700

b:47.5
occ:1.00
O2G A:ANP600 2.2 50.4 1.0
OG1 A:THR178 2.2 49.0 1.0
O2B A:ANP600 2.2 52.2 1.0
CB A:THR178 3.3 43.7 1.0
PG A:ANP600 3.5 51.0 1.0
PB A:ANP600 3.6 53.0 1.0
OD2 A:ASP271 3.7 39.9 1.0
OD1 A:ASP271 3.8 44.3 1.0
N3B A:ANP600 4.1 53.1 1.0
N A:THR178 4.2 43.0 1.0
CG A:ASP271 4.2 42.0 1.0
CA A:THR178 4.3 44.1 1.0
CG2 A:THR178 4.3 43.3 1.0
O3G A:ANP600 4.3 53.4 1.0
O1G A:ANP600 4.5 52.0 1.0
O1B A:ANP600 4.6 52.8 1.0
O2A A:ANP600 4.7 57.2 1.0
O3A A:ANP600 4.7 55.0 1.0

Magnesium binding site 2 out of 15 in 3oee

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Magnesium binding site 2 out of 15 in the Structure of Four Mutant Forms of Yeast F1 Atpase: Alpha-F405S


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of Four Mutant Forms of Yeast F1 Atpase: Alpha-F405S within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg700

b:50.4
occ:1.00
O2G B:ANP600 2.2 54.4 1.0
O2B B:ANP600 2.2 55.1 1.0
OG1 B:THR178 2.2 54.6 1.0
CB B:THR178 3.2 49.3 1.0
PG B:ANP600 3.4 53.3 1.0
PB B:ANP600 3.5 56.2 1.0
N3B B:ANP600 3.8 55.4 1.0
O3G B:ANP600 4.0 54.0 1.0
CG2 B:THR178 4.1 49.5 1.0
OD1 B:ASP271 4.1 51.6 1.0
OD2 B:ASP271 4.2 50.7 1.0
N B:THR178 4.3 49.9 1.0
CA B:THR178 4.3 50.1 1.0
O2A B:ANP600 4.4 58.3 1.0
CG B:ASP271 4.5 48.9 1.0
O1B B:ANP600 4.5 56.8 1.0
O3A B:ANP600 4.6 58.4 1.0
O1G B:ANP600 4.7 54.7 1.0
PA B:ANP600 4.8 58.8 1.0

Magnesium binding site 3 out of 15 in 3oee

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Magnesium binding site 3 out of 15 in the Structure of Four Mutant Forms of Yeast F1 Atpase: Alpha-F405S


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Structure of Four Mutant Forms of Yeast F1 Atpase: Alpha-F405S within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg700

b:56.0
occ:1.00
O2G C:ANP600 2.2 62.4 1.0
O2B C:ANP600 2.2 60.9 1.0
OG1 C:THR178 2.2 73.5 1.0
CB C:THR178 3.3 68.4 1.0
PG C:ANP600 3.3 64.6 1.0
PB C:ANP600 3.4 63.4 1.0
N3B C:ANP600 3.5 63.5 1.0
O2A C:ANP600 3.8 66.0 1.0
OD2 C:ASP271 4.1 61.9 1.0
N C:THR178 4.2 66.2 1.0
CG2 C:THR178 4.2 69.3 1.0
OD1 C:ASP271 4.3 63.1 1.0
O3G C:ANP600 4.3 63.7 1.0
CA C:THR178 4.3 68.2 1.0
O1G C:ANP600 4.3 64.6 1.0
O3A C:ANP600 4.4 65.4 1.0
PA C:ANP600 4.5 66.3 1.0
CG C:ASP271 4.6 62.2 1.0
O1B C:ANP600 4.6 63.0 1.0
O1A C:ANP600 4.9 66.8 1.0

Magnesium binding site 4 out of 15 in 3oee

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Magnesium binding site 4 out of 15 in the Structure of Four Mutant Forms of Yeast F1 Atpase: Alpha-F405S


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Structure of Four Mutant Forms of Yeast F1 Atpase: Alpha-F405S within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg700

b:57.2
occ:1.00
O2G D:ANP600 2.2 63.4 1.0
OG1 D:THR164 2.2 68.2 1.0
O2B D:ANP600 2.2 62.9 1.0
CB D:THR164 3.0 62.5 1.0
PB D:ANP600 3.5 65.1 1.0
PG D:ANP600 3.5 64.5 1.0
N D:THR164 3.8 59.7 1.0
OE2 D:GLU193 3.8 65.8 1.0
N3B D:ANP600 3.9 64.8 1.0
OD2 D:ASP256 3.9 59.6 1.0
CA D:THR164 3.9 61.7 1.0
OD1 D:ASP256 3.9 56.5 1.0
OE1 D:GLU193 4.2 65.0 1.0
CG2 D:THR164 4.2 64.5 1.0
CG D:ASP256 4.3 56.3 1.0
O1B D:ANP600 4.4 65.5 1.0
O3G D:ANP600 4.4 65.4 1.0
CD D:GLU193 4.4 64.7 1.0
O2A D:ANP600 4.6 67.2 1.0
O1G D:ANP600 4.6 65.6 1.0
CE D:LYS163 4.6 51.1 1.0
CD D:GLU189 4.6 58.0 1.0
NH1 D:ARG190 4.6 57.7 1.0
CB D:LYS163 4.6 55.5 1.0
CG D:GLU189 4.6 55.5 1.0
OE1 D:GLU189 4.7 58.7 1.0
O3A D:ANP600 4.7 66.0 1.0
ND2 D:ASN257 4.8 54.0 1.0
C D:LYS163 4.8 58.2 1.0
NZ D:LYS163 5.0 50.1 1.0
OE2 D:GLU189 5.0 57.4 1.0
PA D:ANP600 5.0 66.0 1.0

Magnesium binding site 5 out of 15 in 3oee

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Magnesium binding site 5 out of 15 in the Structure of Four Mutant Forms of Yeast F1 Atpase: Alpha-F405S


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Structure of Four Mutant Forms of Yeast F1 Atpase: Alpha-F405S within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Mg700

b:56.6
occ:1.00
O2G F:ANP600 2.2 58.7 1.0
OG1 F:THR164 2.2 68.7 1.0
O2B F:ANP600 2.2 60.2 1.0
OE1 F:GLU189 3.0 65.5 1.0
CB F:THR164 3.3 63.9 1.0
PG F:ANP600 3.5 59.4 1.0
PB F:ANP600 3.6 62.5 1.0
N3B F:ANP600 3.8 61.5 1.0
O2A F:ANP600 3.8 65.0 1.0
OD1 F:ASP256 3.9 59.7 1.0
CD F:GLU189 3.9 63.9 1.0
OD2 F:ASP256 4.0 62.9 1.0
N F:THR164 4.1 62.6 1.0
O3G F:ANP600 4.2 60.8 1.0
NH1 F:ARG190 4.2 49.1 1.0
CA F:THR164 4.2 64.7 1.0
OE1 F:GLU193 4.3 59.6 1.0
CG2 F:THR164 4.3 65.3 1.0
CG F:ASP256 4.4 60.8 1.0
OE2 F:GLU189 4.5 63.7 1.0
CE F:LYS163 4.6 53.4 1.0
O1G F:ANP600 4.6 59.5 1.0
OE2 F:GLU193 4.6 59.7 1.0
O1B F:ANP600 4.6 63.3 1.0
O3A F:ANP600 4.7 63.1 1.0
PA F:ANP600 4.8 64.0 1.0
CD F:GLU193 4.8 59.5 1.0
CB F:LYS163 4.8 58.9 1.0
NZ F:LYS163 4.9 52.1 1.0
CG F:GLU189 5.0 60.2 1.0

Magnesium binding site 6 out of 15 in 3oee

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Magnesium binding site 6 out of 15 in the Structure of Four Mutant Forms of Yeast F1 Atpase: Alpha-F405S


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Structure of Four Mutant Forms of Yeast F1 Atpase: Alpha-F405S within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Mg700

b:52.9
occ:1.00
O2G J:ANP600 2.2 60.3 1.0
OG1 J:THR178 2.2 68.9 1.0
O2B J:ANP600 2.2 58.9 1.0
CB J:THR178 3.0 64.9 1.0
PG J:ANP600 3.1 61.9 1.0
N3B J:ANP600 3.1 62.3 1.0
PB J:ANP600 3.2 61.6 1.0
O3G J:ANP600 3.5 63.2 1.0
O2A J:ANP600 3.7 66.0 1.0
CG2 J:THR178 3.9 65.4 1.0
O3A J:ANP600 4.0 64.9 1.0
N J:THR178 4.2 63.1 1.0
CA J:THR178 4.2 64.5 1.0
PA J:ANP600 4.3 65.9 1.0
O1G J:ANP600 4.5 61.7 1.0
O1B J:ANP600 4.5 62.2 1.0
O1A J:ANP600 4.6 65.2 1.0
OD2 J:ASP271 4.6 62.6 1.0
OD1 J:ASP271 4.7 61.1 1.0

Magnesium binding site 7 out of 15 in 3oee

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Magnesium binding site 7 out of 15 in the Structure of Four Mutant Forms of Yeast F1 Atpase: Alpha-F405S


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Structure of Four Mutant Forms of Yeast F1 Atpase: Alpha-F405S within 5.0Å range:
probe atom residue distance (Å) B Occ
K:Mg700

b:47.7
occ:1.00
OG1 K:THR178 2.2 55.8 1.0
O2G K:ANP600 2.2 51.9 1.0
O2B K:ANP600 2.2 53.8 1.0
CB K:THR178 3.1 51.5 1.0
PG K:ANP600 3.4 51.9 1.0
PB K:ANP600 3.5 55.0 1.0
N3B K:ANP600 3.8 53.4 1.0
N K:THR178 4.0 51.1 1.0
OD2 K:ASP271 4.0 48.5 1.0
CG2 K:THR178 4.1 51.6 1.0
CA K:THR178 4.1 52.0 1.0
OD1 K:ASP271 4.2 52.1 1.0
O3G K:ANP600 4.2 54.8 1.0
O2A K:ANP600 4.4 58.4 1.0
O3A K:ANP600 4.4 57.0 1.0
CG K:ASP271 4.5 50.4 1.0
O1G K:ANP600 4.5 54.1 1.0
O1B K:ANP600 4.6 54.4 1.0
PA K:ANP600 4.7 56.4 1.0
O1A K:ANP600 4.7 58.3 1.0

Magnesium binding site 8 out of 15 in 3oee

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Magnesium binding site 8 out of 15 in the Structure of Four Mutant Forms of Yeast F1 Atpase: Alpha-F405S


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Structure of Four Mutant Forms of Yeast F1 Atpase: Alpha-F405S within 5.0Å range:
probe atom residue distance (Å) B Occ
L:Mg700

b:52.6
occ:1.00
O2G L:ANP600 2.2 58.9 1.0
OG1 L:THR178 2.2 59.4 1.0
O2B L:ANP600 2.2 58.4 1.0
CB L:THR178 3.1 53.9 1.0
PG L:ANP600 3.4 59.2 1.0
PB L:ANP600 3.5 58.5 1.0
N3B L:ANP600 3.7 59.3 1.0
O3G L:ANP600 3.9 60.4 1.0
OD1 L:ASP271 4.0 50.9 1.0
CG2 L:THR178 4.1 53.5 1.0
N L:THR178 4.1 53.8 1.0
CA L:THR178 4.2 54.5 1.0
OD2 L:ASP271 4.2 51.2 1.0
O2A L:ANP600 4.4 58.9 1.0
O3A L:ANP600 4.5 59.4 1.0
CG L:ASP271 4.6 50.2 1.0
O1G L:ANP600 4.6 60.6 1.0
O1B L:ANP600 4.6 57.3 1.0
PA L:ANP600 4.8 58.8 1.0
O1A L:ANP600 4.9 60.2 1.0

Magnesium binding site 9 out of 15 in 3oee

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Magnesium binding site 9 out of 15 in the Structure of Four Mutant Forms of Yeast F1 Atpase: Alpha-F405S


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Structure of Four Mutant Forms of Yeast F1 Atpase: Alpha-F405S within 5.0Å range:
probe atom residue distance (Å) B Occ
M:Mg700

b:57.5
occ:1.00
OG1 M:THR164 2.2 77.9 1.0
O2G M:ANP600 2.2 64.5 1.0
O2B M:ANP600 2.2 65.8 1.0
OE1 M:GLU189 3.1 68.1 1.0
CB M:THR164 3.2 73.3 1.0
OE2 M:GLU193 3.2 68.5 1.0
PG M:ANP600 3.4 66.8 1.0
PB M:ANP600 3.5 69.2 1.0
NH1 M:ARG190 3.6 65.7 1.0
OE1 M:GLU193 3.6 69.3 1.0
O2A M:ANP600 3.7 72.0 1.0
CD M:GLU193 3.8 68.7 1.0
O3G M:ANP600 3.9 67.1 1.0
N3B M:ANP600 3.9 67.2 1.0
CG2 M:THR164 3.9 73.8 1.0
CD M:GLU189 4.2 66.3 1.0
O3A M:ANP600 4.3 71.1 1.0
N M:THR164 4.4 72.9 1.0
OD2 M:ASP256 4.4 67.2 1.0
CA M:THR164 4.4 74.0 1.0
PA M:ANP600 4.4 71.0 1.0
CZ M:ARG190 4.7 65.9 1.0
O1G M:ANP600 4.7 67.2 1.0
O1A M:ANP600 4.7 69.2 1.0
O1B M:ANP600 4.8 69.2 1.0
OD1 M:ASP256 4.8 64.2 1.0
OE2 M:GLU189 4.8 65.2 1.0

Magnesium binding site 10 out of 15 in 3oee

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Magnesium binding site 10 out of 15 in the Structure of Four Mutant Forms of Yeast F1 Atpase: Alpha-F405S


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of Structure of Four Mutant Forms of Yeast F1 Atpase: Alpha-F405S within 5.0Å range:
probe atom residue distance (Å) B Occ
O:Mg700

b:55.5
occ:1.00
O2G O:ANP600 2.2 60.0 1.0
OG1 O:THR164 2.2 64.3 1.0
O2B O:ANP600 2.2 58.7 1.0
CB O:THR164 3.2 58.6 1.0
PG O:ANP600 3.4 59.4 1.0
PB O:ANP600 3.5 60.0 1.0
OE2 O:GLU193 3.6 59.6 1.0
N3B O:ANP600 3.7 60.0 1.0
NH1 O:ARG190 3.8 52.5 1.0
OD2 O:ASP256 3.9 56.4 1.0
CG2 O:THR164 4.0 60.5 1.0
OE1 O:GLU193 4.0 59.1 1.0
O3G O:ANP600 4.0 60.5 1.0
O2A O:ANP600 4.1 60.6 1.0
OE1 O:GLU189 4.1 59.5 1.0
CD O:GLU193 4.2 59.4 1.0
OD1 O:ASP256 4.2 53.9 1.0
CA O:THR164 4.3 59.1 1.0
N O:THR164 4.4 57.0 1.0
CG O:ASP256 4.5 55.1 1.0
CD O:GLU189 4.6 56.9 1.0
O1G O:ANP600 4.6 62.3 1.0
O3A O:ANP600 4.6 61.1 1.0
O1B O:ANP600 4.6 60.9 1.0
PA O:ANP600 4.8 61.3 1.0
CE O:LYS163 4.9 45.5 1.0
NH1 K:ARG375 4.9 53.2 1.0

Reference:

D.Arsenieva, J.Symersky, Y.Wang, V.Pagadala, D.M.Mueller. Structure of Four Mutant Forms of Yeast F1 Atpase: Alpha-F405S To Be Published.
Page generated: Mon Dec 14 08:32:31 2020

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