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Magnesium in PDB 3r7w: Crystal Structure of GTR1P-GTR2P Complex

Protein crystallography data

The structure of Crystal Structure of GTR1P-GTR2P Complex, PDB code: 3r7w was solved by R.Gong, L.Li, Y.Liu, P.Wang, H.Yang, L.Wang, J.Cheng, K.L.Guan, Y.Xu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 44.06 / 2.77
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 68.908, 148.439, 98.508, 90.00, 100.61, 90.00
R / Rfree (%) 23.6 / 28.3

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of GTR1P-GTR2P Complex (pdb code 3r7w). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Crystal Structure of GTR1P-GTR2P Complex, PDB code: 3r7w:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in 3r7w

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Magnesium binding site 1 out of 4 in the Crystal Structure of GTR1P-GTR2P Complex


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 GTR1P-GTR2P Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg600

b:62.7
occ:1.00
O A:HOH702 2.0 68.7 1.0
OG A:SER20 2.0 62.5 1.0
O2B A:GNP500 2.1 69.9 1.0
O1G A:GNP500 2.2 73.4 1.0
O A:HOH701 2.2 66.4 1.0
OG1 A:THR41 2.3 67.9 1.0
CB A:SER20 3.0 61.8 1.0
CB A:THR41 3.3 68.3 1.0
PG A:GNP500 3.3 66.1 1.0
PB A:GNP500 3.4 70.0 1.0
N3B A:GNP500 3.6 64.0 1.0
O2A A:GNP500 3.7 67.8 1.0
O3G A:GNP500 3.8 59.4 1.0
N A:SER20 3.9 67.9 1.0
N A:THR41 3.9 69.2 1.0
CA A:SER20 4.0 62.9 1.0
OD2 A:ASP61 4.2 60.1 1.0
CA A:THR41 4.2 70.3 1.0
O1B A:GNP500 4.2 61.3 1.0
OD1 A:ASP61 4.3 62.0 1.0
O A:GLY39 4.3 75.1 1.0
CG2 A:THR41 4.4 65.0 1.0
O3A A:GNP500 4.5 64.2 1.0
O2G A:GNP500 4.6 72.8 1.0
CG A:ASP61 4.6 63.4 1.0
PA A:GNP500 4.7 69.2 1.0
C A:ALA40 4.7 70.8 1.0
C A:LYS19 5.0 68.3 1.0

Magnesium binding site 2 out of 4 in 3r7w

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Magnesium binding site 2 out of 4 in the Crystal Structure of GTR1P-GTR2P Complex


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 GTR1P-GTR2P Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg600

b:0.4
occ:1.00
O2B B:GNP500 2.4 0.1 1.0
O1G B:GNP500 2.5 0.7 1.0
CB B:SER23 2.5 0.5 1.0
OG1 B:THR44 2.7 0.0 1.0
OE1 B:GLU62 2.8 0.3 1.0
OG B:SER23 2.9 0.1 1.0
CB B:THR44 3.2 0.1 1.0
N B:THR44 3.4 1.0 1.0
PG B:GNP500 3.8 1.0 1.0
PB B:GNP500 3.8 0.9 1.0
CA B:THR44 3.8 0.4 1.0
CA B:SER23 3.9 0.8 1.0
CD B:GLU62 4.0 0.6 1.0
N3B B:GNP500 4.1 0.6 1.0
O B:THR44 4.2 0.1 1.0
N B:SER23 4.3 0.4 1.0
O2A B:GNP500 4.4 1.0 1.0
OE2 B:GLU62 4.4 0.2 1.0
C B:THR44 4.4 0.8 1.0
O2G B:GNP500 4.5 0.1 1.0
C B:SER43 4.5 0.5 1.0
CG2 B:THR44 4.6 0.6 1.0
O1B B:GNP500 4.7 0.3 1.0
O3A B:GNP500 4.7 0.2 1.0
CA B:SER43 4.8 0.4 1.0
CG B:LYS22 4.8 0.8 1.0
O3G B:GNP500 4.8 0.3 1.0
PA B:GNP500 4.9 0.5 1.0
C B:SER23 4.9 0.6 1.0
O1A B:GNP500 4.9 0.9 1.0

Magnesium binding site 3 out of 4 in 3r7w

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Magnesium binding site 3 out of 4 in the Crystal Structure of GTR1P-GTR2P Complex


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 GTR1P-GTR2P Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg600

b:63.3
occ:1.00
O C:HOH702 1.7 66.3 1.0
O C:HOH701 1.9 62.8 1.0
O1G C:GNP500 2.0 65.0 1.0
O2B C:GNP500 2.1 65.6 1.0
OG1 C:THR41 2.2 62.8 1.0
OG C:SER20 2.3 62.0 1.0
CB C:THR41 3.2 62.2 1.0
PG C:GNP500 3.2 62.3 1.0
CB C:SER20 3.3 62.8 1.0
PB C:GNP500 3.4 68.4 1.0
N3B C:GNP500 3.5 61.3 1.0
N C:THR41 3.7 66.9 1.0
O3G C:GNP500 3.7 58.6 1.0
OD2 C:ASP61 4.0 68.8 1.0
N C:SER20 4.0 62.6 1.0
CA C:THR41 4.1 62.3 1.0
O2A C:GNP500 4.1 62.7 1.0
CA C:SER20 4.2 63.9 1.0
O1B C:GNP500 4.2 60.3 1.0
OD1 C:ASP61 4.3 64.9 1.0
CG2 C:THR41 4.4 59.0 1.0
O2G C:GNP500 4.4 65.4 1.0
O3A C:GNP500 4.4 67.0 1.0
CG C:ASP61 4.5 60.9 1.0
O C:GLY39 4.6 77.5 1.0
PA C:GNP500 4.6 66.1 1.0
C C:ALA40 4.7 72.1 1.0
O1A C:GNP500 4.9 67.8 1.0
CA C:ALA40 4.9 70.8 1.0

Magnesium binding site 4 out of 4 in 3r7w

Go back to Magnesium Binding Sites List in 3r7w
Magnesium binding site 4 out of 4 in the Crystal Structure of GTR1P-GTR2P Complex


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 GTR1P-GTR2P Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg600

b:0.6
occ:1.00
OG D:SER23 2.1 0.1 1.0
O1G D:GNP500 2.3 0.5 1.0
CB D:SER23 2.5 0.5 1.0
O2B D:GNP500 2.8 0.1 1.0
N D:SER23 3.4 0.5 1.0
PG D:GNP500 3.4 0.3 1.0
CA D:SER23 3.5 0.1 1.0
O3G D:GNP500 3.5 0.1 1.0
NZ D:LYS22 3.7 0.2 1.0
N3B D:GNP500 3.8 0.5 1.0
PB D:GNP500 3.9 0.3 1.0
CB D:LYS22 4.1 0.3 1.0
CE D:LYS22 4.1 0.9 1.0
C D:LYS22 4.5 0.8 1.0
O1B D:GNP500 4.6 0.9 1.0
C D:SER23 4.7 0.4 1.0
O2G D:GNP500 4.8 0.8 1.0
CG D:LYS22 4.9 0.9 1.0
CA D:LYS22 5.0 0.5 1.0

Reference:

R.Gong, L.Li, Y.Liu, P.Wang, H.Yang, L.Wang, J.Cheng, K.L.Guan, Y.Xu. Crystal Structure of the GTR1P-GTR2P Complex Reveals New Insights Into the Amino Acid-Induced TORC1 Activation Genes Dev. V. 25 1668 2011.
ISSN: ISSN 0890-9369
PubMed: 21816923
DOI: 10.1101/GAD.16968011
Page generated: Thu Aug 15 10:20:08 2024

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