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Magnesium in PDB 1fnt: Crystal Structure of the 20S Proteasome From Yeast in Complex with the Proteasome Activator PA26 From Trypanosome Brucei at 3.2 Angstroms Resolution

Enzymatic activity of Crystal Structure of the 20S Proteasome From Yeast in Complex with the Proteasome Activator PA26 From Trypanosome Brucei at 3.2 Angstroms Resolution

All present enzymatic activity of Crystal Structure of the 20S Proteasome From Yeast in Complex with the Proteasome Activator PA26 From Trypanosome Brucei at 3.2 Angstroms Resolution:
3.4.99.46;

Protein crystallography data

The structure of Crystal Structure of the 20S Proteasome From Yeast in Complex with the Proteasome Activator PA26 From Trypanosome Brucei at 3.2 Angstroms Resolution, PDB code: 1fnt was solved by F.G.Whitby, E.Masters, L.Kramer, J.R.Knowlton, Y.Yao, C.C.Wang, C.P.Hill, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.00 / 3.20
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 192.964, 232.127, 296.772, 90.00, 90.00, 90.00
R / Rfree (%) 25.5 / 32.5

Magnesium Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 14;

Binding sites:

The binding sites of Magnesium atom in the Crystal Structure of the 20S Proteasome From Yeast in Complex with the Proteasome Activator PA26 From Trypanosome Brucei at 3.2 Angstroms Resolution (pdb code 1fnt). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 14 binding sites of Magnesium where determined in the Crystal Structure of the 20S Proteasome From Yeast in Complex with the Proteasome Activator PA26 From Trypanosome Brucei at 3.2 Angstroms Resolution, PDB code: 1fnt:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 14 in 1fnt

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Magnesium binding site 1 out of 14 in the Crystal Structure of the 20S Proteasome From Yeast in Complex with the Proteasome Activator PA26 From Trypanosome Brucei at 3.2 Angstroms Resolution


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of the 20S Proteasome From Yeast in Complex with the Proteasome Activator PA26 From Trypanosome Brucei at 3.2 Angstroms Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Mg1007

b:38.8
occ:1.00
 OD1 G:ASN126 3.0 77.4 1.0
OG G:SER12 3.5 87.9 1.0
CB G:SER12 4.0 89.4 1.0
CG G:ASN126 4.0 76.5 1.0
N G:ASN126 4.2 69.1 1.0
O A:ALA132 4.4 90.1 1.0
O G:LEU124 4.5 58.8 1.0
CB G:ASN126 4.6 72.4 1.0
CA G:TYR125 4.6 56.5 1.0
CA A:MET134 4.8 79.6 1.0
C G:TYR125 4.9 62.8 1.0
C A:MET134 4.9 73.5 1.0
N A:MET134 5.0 86.1 1.0

Magnesium binding site 2 out of 14 in 1fnt

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Magnesium binding site 2 out of 14 in the Crystal Structure of the 20S Proteasome From Yeast in Complex with the Proteasome Activator PA26 From Trypanosome Brucei at 3.2 Angstroms Resolution


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of the 20S Proteasome From Yeast in Complex with the Proteasome Activator PA26 From Trypanosome Brucei at 3.2 Angstroms Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Mg1002

b:81.1
occ:1.00
 O H:SER169 2.5 84.4 1.0
O H:ILE163 2.7 80.1 1.0
O H:ASP166 3.0 84.5 1.0
CG2 H:ILE163 3.0 59.9 1.0
C H:ILE163 3.3 77.7 1.0
CA H:ILE163 3.3 74.0 1.0
C H:ASP166 3.6 85.1 1.0
C H:SER169 3.6 86.4 1.0
CB H:ILE163 3.8 67.2 1.0
CA H:GLY167 3.8 89.8 1.0
N H:GLY167 4.0 86.7 1.0
CA H:GLY170 4.0 87.8 1.0
O H:GLY167 4.1 91.0 1.0
NH2 H:ARG19 4.2 80.2 1.0
C H:GLY167 4.2 90.1 1.0
N H:GLY170 4.2 88.1 1.0
CZ H:ARG19 4.4 84.8 1.0
NE H:ARG19 4.5 85.1 1.0
N H:LYS164 4.6 77.8 1.0
O H:ALA162 4.6 74.0 1.0
N H:ASP166 4.6 75.9 1.0
N H:ILE163 4.7 75.8 1.0
CA H:ASP166 4.7 81.8 1.0
N H:SER169 4.7 87.1 1.0
CA H:SER169 4.8 84.0 1.0
OG H:SER169 4.9 65.1 1.0
CG1 H:ILE163 4.9 65.5 1.0
CD1 H:ILE163 5.0 66.9 1.0

Magnesium binding site 3 out of 14 in 1fnt

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Magnesium binding site 3 out of 14 in the Crystal Structure of the 20S Proteasome From Yeast in Complex with the Proteasome Activator PA26 From Trypanosome Brucei at 3.2 Angstroms Resolution


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Crystal Structure of the 20S Proteasome From Yeast in Complex with the Proteasome Activator PA26 From Trypanosome Brucei at 3.2 Angstroms Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
I:Mg1001

b:67.9
occ:1.00
 O I:ASP166 2.3 65.2 1.0
OXT a:ASP213 2.8 0.0 1.0
O I:ILE163 2.8 88.1 1.0
O a:ASP213 3.0 95.5 1.0
C I:ASP166 3.1 70.1 1.0
C a:ASP213 3.2 99.5 1.0
O I:SER169 3.3 90.2 1.0
CA I:LEU167 3.5 71.0 1.0
N I:LEU167 3.6 65.9 1.0
O I:LEU167 3.7 81.6 1.0
C I:ILE163 3.9 82.7 1.0
C I:LEU167 3.9 77.1 1.0
O I:TRP164 4.0 79.2 1.0
NH1 I:ARG19 4.1 89.0 1.0
N I:ASP166 4.2 78.3 1.0
O I:GLY162 4.3 74.3 1.0
CA I:ASP166 4.3 76.4 1.0
C I:TRP164 4.3 82.1 1.0
C I:SER169 4.5 88.6 1.0
OD1 a:ASP213 4.5 0.0 1.0
CA I:TRP164 4.6 82.5 1.0
N I:TRP164 4.6 81.8 1.0
OG I:SER169 4.6 85.1 1.0
CD2 I:LEU167 4.7 70.7 1.0
CA I:ILE163 4.7 78.9 1.0
CA a:ASP213 4.7 98.8 1.0
CB I:LEU167 4.8 68.9 1.0
CZ I:ARG19 4.9 97.9 1.0
N I:SER169 4.9 86.7 1.0
N I:GLY168 5.0 81.0 1.0

Magnesium binding site 4 out of 14 in 1fnt

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Magnesium binding site 4 out of 14 in the Crystal Structure of the 20S Proteasome From Yeast in Complex with the Proteasome Activator PA26 From Trypanosome Brucei at 3.2 Angstroms Resolution


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Crystal Structure of the 20S Proteasome From Yeast in Complex with the Proteasome Activator PA26 From Trypanosome Brucei at 3.2 Angstroms Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Mg1005

b:37.3
occ:1.00
 O J:ASP169 2.9 56.2 1.0
O J:ALA166 3.1 50.0 1.0
O J:SER172 3.1 53.0 1.0
OXT J:ASP196 3.5 0.0 1.0
O J:ASP167 3.8 62.5 1.0
CA J:ASP167 3.8 56.8 1.0
C J:ASP169 4.1 60.0 1.0
C J:ASP167 4.1 59.6 1.0
C J:ALA166 4.1 44.7 1.0
OD1 J:ASP167 4.3 79.7 1.0
C J:SER172 4.4 56.6 1.0
NH1 Z:ARG19 4.4 0.0 1.0
CA J:ALA170 4.4 55.6 1.0
O J:ALA170 4.4 61.9 1.0
N J:ASP167 4.5 48.6 1.0
C J:ASP196 4.6 95.6 1.0
C J:ALA170 4.6 59.0 1.0
N J:ALA170 4.7 55.6 1.0
CB J:ASP167 4.8 67.1 1.0
O J:ASP196 4.8 94.2 1.0
N J:ASP169 4.9 57.8 1.0
N J:SER172 4.9 68.2 1.0

Magnesium binding site 5 out of 14 in 1fnt

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Magnesium binding site 5 out of 14 in the Crystal Structure of the 20S Proteasome From Yeast in Complex with the Proteasome Activator PA26 From Trypanosome Brucei at 3.2 Angstroms Resolution


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Crystal Structure of the 20S Proteasome From Yeast in Complex with the Proteasome Activator PA26 From Trypanosome Brucei at 3.2 Angstroms Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Mg1006

b:24.8
occ:1.00
 O J:GLY131 2.5 58.3 1.0
CB J:SER134 2.8 70.7 1.0
O J:THR132 3.5 66.9 1.0
C J:GLY131 3.6 61.3 1.0
N J:SER134 3.7 70.0 1.0
OG J:SER134 3.8 72.8 1.0
CA J:SER134 3.8 69.3 1.0
C J:THR132 4.1 62.5 1.0
N J:GLY131 4.4 56.8 1.0
N J:THR132 4.4 60.6 1.0
CA J:THR132 4.4 59.7 1.0
CA J:GLY131 4.6 59.4 1.0
C J:ALA133 4.9 68.6 1.0
C J:SER134 5.0 67.9 1.0
N J:ALA133 5.0 60.3 1.0

Magnesium binding site 6 out of 14 in 1fnt

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Magnesium binding site 6 out of 14 in the Crystal Structure of the 20S Proteasome From Yeast in Complex with the Proteasome Activator PA26 From Trypanosome Brucei at 3.2 Angstroms Resolution


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Crystal Structure of the 20S Proteasome From Yeast in Complex with the Proteasome Activator PA26 From Trypanosome Brucei at 3.2 Angstroms Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
L:Mg1003

b:43.3
occ:1.00
 O X:ASP196 2.5 87.7 1.0
O L:ALA165 2.7 43.9 1.0
O L:ASP168 2.9 39.9 1.0
O L:HIS166 3.0 41.6 1.0
C L:ASP168 3.1 41.4 1.0
CA L:ALA169 3.2 36.6 1.0
N L:ALA169 3.3 34.0 1.0
C X:ASP196 3.4 84.9 1.0
O L:ARG167 3.5 52.0 1.0
C L:HIS166 3.5 41.4 1.0
C L:ARG167 3.6 46.2 1.0
C L:ALA165 3.7 43.6 1.0
O L:SER171 3.8 53.9 1.0
N L:ASP168 3.9 44.4 1.0
CA X:ASP196 3.9 81.4 1.0
C L:ALA169 4.0 37.0 1.0
O L:ALA169 4.0 42.5 1.0
N L:ARG167 4.1 41.0 1.0
CA L:ASP168 4.1 43.6 1.0
CA L:ARG167 4.3 41.5 1.0
CA L:HIS166 4.3 39.8 1.0
CB L:ALA169 4.4 36.6 1.0
N L:HIS166 4.4 41.8 1.0
OXT X:ASP196 4.4 88.9 1.0
CB X:ASP196 4.5 81.6 1.0
O L:ALA164 4.6 54.9 1.0
CA L:ALA165 4.8 42.5 1.0
NH1 L:ARG19 4.9 89.3 1.0
C L:SER171 5.0 55.5 1.0
NE1 X:TRP174 5.0 66.1 1.0

Magnesium binding site 7 out of 14 in 1fnt

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Magnesium binding site 7 out of 14 in the Crystal Structure of the 20S Proteasome From Yeast in Complex with the Proteasome Activator PA26 From Trypanosome Brucei at 3.2 Angstroms Resolution


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Crystal Structure of the 20S Proteasome From Yeast in Complex with the Proteasome Activator PA26 From Trypanosome Brucei at 3.2 Angstroms Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
M:Mg1004

b:26.4
occ:1.00
 OE1 E:GLU105 2.4 66.3 1.0
OG M:SER76 2.7 44.2 1.0
OG M:SER79 2.9 32.9 1.0
CB M:SER76 3.3 47.3 1.0
OE1 M:GLU107 3.5 85.3 1.0
CD E:GLU105 3.6 62.3 1.0
CB E:GLU105 3.8 47.3 1.0
N M:SER76 3.9 46.3 1.0
CB M:SER79 4.0 30.7 1.0
CA M:SER76 4.2 45.5 1.0
CG E:GLU105 4.2 59.0 1.0
OD1 M:ASN78 4.3 47.2 1.0
OE2 E:GLU105 4.6 54.7 1.0
OH M:TYR66 4.6 69.9 1.0
CD M:GLU107 4.7 84.8 1.0
CE M:LYS73 4.8 81.3 1.0
O M:LYS74 4.9 53.5 1.0
O M:SER76 4.9 44.1 1.0
NZ M:LYS73 5.0 82.6 1.0

Magnesium binding site 8 out of 14 in 1fnt

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Magnesium binding site 8 out of 14 in the Crystal Structure of the 20S Proteasome From Yeast in Complex with the Proteasome Activator PA26 From Trypanosome Brucei at 3.2 Angstroms Resolution


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Crystal Structure of the 20S Proteasome From Yeast in Complex with the Proteasome Activator PA26 From Trypanosome Brucei at 3.2 Angstroms Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
U:Mg1014

b:66.0
occ:1.00
 OD1 U:ASN126 3.1 79.8 1.0
OG U:SER12 3.5 0.0 1.0
N U:ASN126 4.1 69.5 1.0
CB U:SER12 4.1 96.5 1.0
CA U:TYR125 4.2 65.8 1.0
CG U:ASN126 4.2 74.2 1.0
O O:ALA132 4.2 75.2 1.0
O U:LEU124 4.2 69.0 1.0
CA O:MET134 4.4 84.1 1.0
N O:MET134 4.5 87.0 1.0
C O:MET134 4.6 83.9 1.0
C U:TYR125 4.6 69.5 1.0
CB U:TYR125 4.7 64.0 1.0
CB U:ASN126 4.8 72.4 1.0
N O:ARG135 4.8 82.2 1.0

Magnesium binding site 9 out of 14 in 1fnt

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Magnesium binding site 9 out of 14 in the Crystal Structure of the 20S Proteasome From Yeast in Complex with the Proteasome Activator PA26 From Trypanosome Brucei at 3.2 Angstroms Resolution


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Crystal Structure of the 20S Proteasome From Yeast in Complex with the Proteasome Activator PA26 From Trypanosome Brucei at 3.2 Angstroms Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
V:Mg1009

b:39.6
occ:1.00
 O V:SER169 2.5 77.7 1.0
O V:ASP166 3.1 78.0 1.0
CG2 V:ILE163 3.3 64.6 1.0
O V:ILE163 3.4 82.5 1.0
C V:SER169 3.4 84.0 1.0
NH2 V:ARG19 3.5 76.2 1.0
CA V:GLY167 3.6 86.2 1.0
O V:GLY167 3.6 87.4 1.0
CA V:GLY170 3.7 87.0 1.0
CZ V:ARG19 3.8 80.3 1.0
C V:ASP166 3.8 82.3 1.0
NE V:ARG19 3.9 73.3 1.0
C V:GLY167 3.9 86.5 1.0
N V:GLY170 3.9 88.5 1.0
CA V:ILE163 3.9 76.7 1.0
C V:ILE163 4.0 80.9 1.0
N V:GLY167 4.0 83.5 1.0
CB V:ILE163 4.2 72.4 1.0
NH1 V:ARG19 4.4 88.2 1.0
N V:SER169 4.5 87.3 1.0
CA V:SER169 4.6 83.8 1.0
CD V:ARG19 4.7 73.7 1.0
OG V:SER169 5.0 84.1 1.0

Magnesium binding site 10 out of 14 in 1fnt

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Magnesium binding site 10 out of 14 in the Crystal Structure of the 20S Proteasome From Yeast in Complex with the Proteasome Activator PA26 From Trypanosome Brucei at 3.2 Angstroms Resolution


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of Crystal Structure of the 20S Proteasome From Yeast in Complex with the Proteasome Activator PA26 From Trypanosome Brucei at 3.2 Angstroms Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
W:Mg1008

b:67.5
occ:1.00
 O W:ILE163 2.4 79.3 1.0
O W:ASP166 2.6 77.7 1.0
OXT M:ASP213 2.7 87.2 1.0
O M:ASP213 2.7 89.1 1.0
C M:ASP213 3.1 90.8 1.0
O W:SER169 3.4 99.7 1.0
C W:ASP166 3.5 75.8 1.0
C W:ILE163 3.5 75.6 1.0
O W:TRP164 3.7 71.5 1.0
CA W:LEU167 3.9 71.4 1.0
N W:LEU167 4.0 73.4 1.0
C W:TRP164 4.1 71.8 1.0
O W:LEU167 4.1 73.9 1.0
CA W:TRP164 4.2 73.1 1.0
O W:GLY162 4.2 87.1 1.0
N W:TRP164 4.3 75.0 1.0
NH1 W:ARG19 4.3 97.4 1.0
C W:LEU167 4.3 73.9 1.0
N W:ASP166 4.4 70.7 1.0
CA W:ILE163 4.5 73.8 1.0
CA W:ASP166 4.5 75.4 1.0
OD1 M:ASP213 4.6 92.9 1.0
CA M:ASP213 4.6 91.9 1.0
C W:SER169 4.6 96.1 1.0
O M:ARG212 4.8 79.2 1.0
OG W:SER169 4.8 0.0 1.0
N W:ASN165 4.9 72.6 1.0
CZ W:ARG19 5.0 99.9 1.0
NH2 W:ARG19 5.0 0.0 1.0

Reference:

F.G.Whitby, E.I.Masters, L.Kramer, J.R.Knowlton, Y.Yao, C.C.Wang, C.P.Hill. Structural Basis For the Activation of 20S Proteasomes By 11S Regulators. Nature V. 408 115 2000.
ISSN: ISSN 0028-0836
PubMed: 11081519
DOI: 10.1038/35040607
Page generated: Tue Aug 13 03:20:14 2024

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