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Magnesium in PDB 5tc8: Crystal Structure of Human 5'-Deoxy-5'-Methylthioadenosine Phosphorylase in Complex with Methylthio-Dadme-Immucillin-A

Enzymatic activity of Crystal Structure of Human 5'-Deoxy-5'-Methylthioadenosine Phosphorylase in Complex with Methylthio-Dadme-Immucillin-A

All present enzymatic activity of Crystal Structure of Human 5'-Deoxy-5'-Methylthioadenosine Phosphorylase in Complex with Methylthio-Dadme-Immucillin-A:
2.4.2.28;

Protein crystallography data

The structure of Crystal Structure of Human 5'-Deoxy-5'-Methylthioadenosine Phosphorylase in Complex with Methylthio-Dadme-Immucillin-A, PDB code: 5tc8 was solved by S.A.Cameron, R.S.Firestone, V.L.Schramm, S.C.Almo, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 25.00 / 1.80
Space group P 3 2 1
Cell size a, b, c (Å), α, β, γ (°) 123.065, 123.065, 44.755, 90.00, 90.00, 120.00
R / Rfree (%) 16 / 18

Other elements in 5tc8:

The structure of Crystal Structure of Human 5'-Deoxy-5'-Methylthioadenosine Phosphorylase in Complex with Methylthio-Dadme-Immucillin-A also contains other interesting chemical elements:

Chlorine (Cl) 1 atom

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of Human 5'-Deoxy-5'-Methylthioadenosine Phosphorylase in Complex with Methylthio-Dadme-Immucillin-A (pdb code 5tc8). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Crystal Structure of Human 5'-Deoxy-5'-Methylthioadenosine Phosphorylase in Complex with Methylthio-Dadme-Immucillin-A, PDB code: 5tc8:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 5tc8

Go back to Magnesium Binding Sites List in 5tc8
Magnesium binding site 1 out of 2 in the Crystal Structure of Human 5'-Deoxy-5'-Methylthioadenosine Phosphorylase in Complex with Methylthio-Dadme-Immucillin-A


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 Human 5'-Deoxy-5'-Methylthioadenosine Phosphorylase in Complex with Methylthio-Dadme-Immucillin-A within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg303

b:20.1
occ:0.33
 O A:HOH573 2.0 16.8 0.3
O A:THR118 2.7 17.1 1.0
SD A:MET119 3.7 37.7 1.0
C A:THR118 3.7 16.4 1.0
CA A:MET119 4.2 21.9 1.0
N A:MET119 4.3 17.6 1.0
CB A:THR118 4.5 14.9 1.0
OG1 A:THR118 4.6 15.3 1.0
CA A:THR118 4.7 14.7 1.0
CG A:MET119 4.8 30.9 1.0
CE A:MET119 5.0 38.8 1.0
CB A:MET119 5.0 25.4 1.0

Magnesium binding site 2 out of 2 in 5tc8

Go back to Magnesium Binding Sites List in 5tc8
Magnesium binding site 2 out of 2 in the Crystal Structure of Human 5'-Deoxy-5'-Methylthioadenosine Phosphorylase in Complex with Methylthio-Dadme-Immucillin-A


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 Human 5'-Deoxy-5'-Methylthioadenosine Phosphorylase in Complex with Methylthio-Dadme-Immucillin-A within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg304

b:25.1
occ:1.00
 O A:HOH533 2.7 21.1 1.0
O1 A:2PE306 2.7 37.9 1.0
O4 A:2PE306 2.8 41.8 1.0
O7 A:2PE306 2.9 38.1 1.0
O16 A:2PE306 2.9 39.9 1.0
O10 A:2PE306 3.0 38.0 1.0
O13 A:2PE306 3.0 38.3 1.0
O19 A:2PE306 3.1 38.4 1.0
O A:HOH489 3.2 26.3 1.0
C2 A:2PE306 3.4 42.4 1.0
C15 A:2PE306 3.5 40.2 1.0
C3 A:2PE306 3.7 43.1 1.0
C6 A:2PE306 3.7 38.1 1.0
C17 A:2PE306 3.7 41.0 1.0
C20 A:2PE306 3.8 37.9 1.0
C5 A:2PE306 3.8 40.7 1.0
C9 A:2PE306 3.8 38.4 1.0
C14 A:2PE306 3.8 39.1 1.0
C8 A:2PE306 3.8 38.4 1.0
C21 A:2PE306 3.9 37.7 1.0
C12 A:2PE306 3.9 38.0 1.0
C11 A:2PE306 3.9 38.3 1.0
C18 A:2PE306 4.0 40.5 1.0
O A:HOH470 4.6 17.6 1.0
O22 A:2PE306 4.7 38.5 1.0

Reference:

R.S.Firestone, S.A.Cameron, J.M.Karp, V.L.Arcus, V.L.Schramm. Tba To Be Published.
Page generated: Mon Sep 30 04:47:49 2024

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