Magnesium in PDB 8rch: Cryoem Structure of MTORC1 with A Paediatric Kidney Cancer-Associated 1455-Ewed-1458 Duplication in Mtor, Overall Refinement

Enzymatic activity of Cryoem Structure of MTORC1 with A Paediatric Kidney Cancer-Associated 1455-Ewed-1458 Duplication in Mtor, Overall Refinement

All present enzymatic activity of Cryoem Structure of MTORC1 with A Paediatric Kidney Cancer-Associated 1455-Ewed-1458 Duplication in Mtor, Overall Refinement:
2.7.11.1;

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Cryoem Structure of MTORC1 with A Paediatric Kidney Cancer-Associated 1455-Ewed-1458 Duplication in Mtor, Overall Refinement (pdb code 8rch). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Cryoem Structure of MTORC1 with A Paediatric Kidney Cancer-Associated 1455-Ewed-1458 Duplication in Mtor, Overall Refinement, PDB code: 8rch:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in 8rch

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Magnesium binding site 1 out of 4 in the Cryoem Structure of MTORC1 with A Paediatric Kidney Cancer-Associated 1455-Ewed-1458 Duplication in Mtor, Overall Refinement


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Cryoem Structure of MTORC1 with A Paediatric Kidney Cancer-Associated 1455-Ewed-1458 Duplication in Mtor, Overall Refinement within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg3001

b:101.5
occ:1.00
 O A:HIS2189 2.2 125.0 1.0
O1G A:ANP3000 2.9 138.3 1.0
HA A:GLU2190 3.0 126.6 1.0
HB2 A:GLU2190 3.1 126.6 1.0
C A:HIS2189 3.4 125.0 1.0
HG3 A:GLU2190 3.6 126.6 1.0
CA A:GLU2190 3.7 126.6 1.0
CB A:GLU2190 3.7 126.6 1.0
O2B A:ANP3000 3.8 138.3 1.0
N A:GLU2190 4.0 126.6 1.0
CG A:GLU2190 4.1 126.6 1.0
HB2 A:HIS2189 4.1 125.0 1.0
HB3 A:HIS2189 4.3 125.0 1.0
PG A:ANP3000 4.4 138.3 1.0
HZ2 A:LYS2187 4.5 116.9 1.0
O A:GLY2188 4.5 113.4 1.0
CB A:HIS2189 4.5 125.0 1.0
CA A:HIS2189 4.6 125.0 1.0
HB3 A:GLU2190 4.6 126.6 1.0
CD A:GLU2190 4.7 126.6 1.0
OE1 A:GLU2190 4.7 126.6 1.0
OE1 A:GLN2167 4.8 105.5 1.0
H A:ASP2191 4.8 122.2 1.0
H A:GLU2190 4.8 126.6 1.0
HG3 A:GLN2167 4.9 105.5 1.0
HG2 A:GLU2190 4.9 126.6 1.0
PB A:ANP3000 5.0 138.3 1.0

Magnesium binding site 2 out of 4 in 8rch

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Magnesium binding site 2 out of 4 in the Cryoem Structure of MTORC1 with A Paediatric Kidney Cancer-Associated 1455-Ewed-1458 Duplication in Mtor, Overall Refinement


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Cryoem Structure of MTORC1 with A Paediatric Kidney Cancer-Associated 1455-Ewed-1458 Duplication in Mtor, Overall Refinement within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg3002

b:99.7
occ:1.00
 OE2 A:GLU2190 2.0 126.6 1.0
OE1 A:GLU2190 2.1 126.6 1.0
CD A:GLU2190 2.2 126.6 1.0
O2A A:ANP3000 2.3 138.3 1.0
PA A:ANP3000 3.4 138.3 1.0
HD11 A:ILE2237 3.4 116.5 1.0
O1A A:ANP3000 3.5 138.3 1.0
HG2 A:LYS2187 3.5 116.9 1.0
CG A:GLU2190 3.6 126.6 1.0
O2B A:ANP3000 3.7 138.3 1.0
HG3 A:GLU2190 3.7 126.6 1.0
HG12 A:ILE2237 3.8 116.5 1.0
HB2 A:GLU2190 4.1 126.6 1.0
CD1 A:ILE2237 4.2 116.5 1.0
O3A A:ANP3000 4.2 138.3 1.0
HG2 A:GLU2190 4.2 126.6 1.0
HB3 A:LYS2187 4.2 116.9 1.0
N3B A:ANP3000 4.2 138.3 1.0
HD13 A:ILE2237 4.3 116.5 1.0
PB A:ANP3000 4.3 138.3 1.0
CG A:LYS2187 4.3 116.9 1.0
HD21 A:LEU2192 4.4 124.1 1.0
CB A:GLU2190 4.4 126.6 1.0
CG1 A:ILE2237 4.5 116.5 1.0
HG3 A:LYS2187 4.5 116.9 1.0
O1G A:ANP3000 4.7 138.3 1.0
CB A:LYS2187 4.7 116.9 1.0
O5' A:ANP3000 4.7 138.3 1.0
HB3 A:GLU2190 4.8 126.6 1.0
HB2 A:LYS2187 4.8 116.9 1.0
HG13 A:ILE2237 4.9 116.5 1.0
HE3 A:LYS2187 4.9 116.9 1.0
PG A:ANP3000 5.0 138.3 1.0
HD12 A:ILE2237 5.0 116.5 1.0

Magnesium binding site 3 out of 4 in 8rch

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Magnesium binding site 3 out of 4 in the Cryoem Structure of MTORC1 with A Paediatric Kidney Cancer-Associated 1455-Ewed-1458 Duplication in Mtor, Overall Refinement


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Cryoem Structure of MTORC1 with A Paediatric Kidney Cancer-Associated 1455-Ewed-1458 Duplication in Mtor, Overall Refinement within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg3001

b:103.3
occ:1.00
 O1G B:ANP3000 2.0 80.7 1.0
O5' B:ANP3000 2.0 80.7 1.0
O3' B:ANP3000 2.2 80.7 1.0
O2B B:ANP3000 2.2 80.7 1.0
C5' B:ANP3000 2.3 80.7 1.0
C4' B:ANP3000 2.4 80.7 1.0
C3' B:ANP3000 2.4 80.7 1.0
PG B:ANP3000 3.0 80.7 1.0
PB B:ANP3000 3.0 80.7 1.0
N3B B:ANP3000 3.0 80.7 1.0
PA B:ANP3000 3.3 80.7 1.0
O3A B:ANP3000 3.6 80.7 1.0
O3G B:ANP3000 3.8 80.7 1.0
O4' B:ANP3000 3.9 80.7 1.0
C2' B:ANP3000 4.0 80.7 1.0
O1A B:ANP3000 4.1 80.7 1.0
O2G B:ANP3000 4.2 80.7 1.0
O1B B:ANP3000 4.4 80.7 1.0
HD12 B:ILE2356 4.4 48.9 1.0
O2A B:ANP3000 4.4 80.7 1.0
C1' B:ANP3000 4.6 80.7 1.0
O2' B:ANP3000 4.7 80.7 1.0
C8 B:ANP3000 4.9 80.7 1.0

Magnesium binding site 4 out of 4 in 8rch

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Magnesium binding site 4 out of 4 in the Cryoem Structure of MTORC1 with A Paediatric Kidney Cancer-Associated 1455-Ewed-1458 Duplication in Mtor, Overall Refinement


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Cryoem Structure of MTORC1 with A Paediatric Kidney Cancer-Associated 1455-Ewed-1458 Duplication in Mtor, Overall Refinement within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg3002

b:77.5
occ:1.00
 HB3 B:LYS2187 1.8 71.6 1.0
H B:LYS2187 1.8 71.6 1.0
N B:LYS2187 2.1 71.6 1.0
O B:LYS2187 2.1 71.6 1.0
CA B:LYS2187 2.2 71.6 1.0
CB B:LYS2187 2.4 71.6 1.0
O B:GLY2235 2.4 66.4 1.0
C B:LYS2187 2.4 71.6 1.0
OE2 B:GLU2190 2.8 80.8 1.0
HB2 B:LYS2187 2.9 71.6 1.0
OE1 B:GLU2190 3.1 80.8 1.0
C B:LEU2186 3.1 67.3 1.0
H B:GLY2235 3.1 66.4 1.0
HA B:LYS2187 3.2 71.6 1.0
CD B:GLU2190 3.2 80.8 1.0
HA B:LEU2186 3.5 67.3 1.0
C B:GLY2235 3.6 66.4 1.0
CG B:LYS2187 3.6 71.6 1.0
HG3 B:LYS2187 3.6 71.6 1.0
N B:GLY2188 3.7 70.2 1.0
O B:LEU2185 3.8 66.7 1.0
CA B:LEU2186 3.9 67.3 1.0
O B:LEU2186 3.9 67.3 1.0
N B:GLY2235 3.9 66.4 1.0
HG2 B:LYS2187 4.0 71.6 1.0
HA B:LEU2236 4.2 64.8 1.0
H B:GLY2188 4.2 70.2 1.0
HG12 B:ILE2237 4.3 64.0 1.0
CA B:GLY2235 4.3 66.4 1.0
HD12 B:LEU2186 4.3 67.3 1.0
HD11 B:LEU2192 4.4 69.6 1.0
HA B:SER2234 4.5 68.6 1.0
C B:LEU2185 4.5 66.7 1.0
HA2 B:GLY2188 4.5 70.2 1.0
N B:LEU2236 4.5 64.8 1.0
CG B:GLU2190 4.6 80.8 1.0
HG2 B:GLU2190 4.6 80.8 1.0
N B:LEU2186 4.6 67.3 1.0
CA B:GLY2188 4.7 70.2 1.0
HD2 B:LYS2187 4.7 71.6 1.0
CD B:LYS2187 4.7 71.6 1.0
HB2 B:SER2234 4.8 68.6 1.0
CA B:LEU2236 4.8 64.8 1.0
HA3 B:GLY2235 4.8 66.4 1.0
H B:ILE2237 4.9 64.0 1.0
O2A B:ANP3000 4.9 80.7 1.0
HG B:LEU2186 4.9 67.3 1.0
HG3 B:GLU2190 5.0 80.8 1.0
C B:SER2234 5.0 68.6 1.0
O B:GLY2188 5.0 70.2 1.0

Reference:

M.Anandapadamanaban, I.Hay, O.Perisic, R.Williams. Cryoem Structure of MTORC1 with the Cancer-Associated 1455-Ewed-1458 Duplication Variant, Overall Refinement To Be Published.
Page generated: Fri Oct 4 17:31:01 2024

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