3.000 Å
X-ray
2008-03-16
Name: | Glucosyl-3-phosphoglycerate synthase |
---|---|
ID: | GPGS_MYCPA |
AC: | Q73WU1 |
Organism: | Mycobacterium paratuberculosis |
Reign: | Bacteria |
TaxID: | 262316 |
EC Number: | 2.4.1.266 |
Chain Name: | Percentage of Residues within binding site |
---|---|
A | 100 % |
B-Factor: | 21.013 |
---|---|
Number of residues: | 45 |
Including | |
Standard Amino Acids: | 43 |
Non Standard Amino Acids: | 1 |
Water Molecules: | 1 |
Cofactors: | |
Metals: | MN |
Ligandability | Volume (Å3) |
---|---|
1.106 | 1113.750 |
% Hydrophobic | % Polar |
---|---|
46.97 | 53.03 |
According to VolSite |
HET Code: | UPG |
---|---|
Formula: | C15H22N2O17P2 |
Molecular weight: | 564.286 g/mol |
DrugBank ID: | DB01861 |
Buried Surface Area: | 69.81 % |
Polar Surface area: | 316.82 Å2 |
Number of | |
---|---|
H-Bond Acceptors: | 17 |
H-Bond Donors: | 7 |
Rings: | 3 |
Aromatic rings: | 0 |
Anionic atoms: | 2 |
Cationic atoms: | 0 |
Rule of Five Violation: | 3 |
Rotatable Bonds: | 9 |
X | Y | Z |
---|---|---|
9.33994 | 24.3879 | 13.2209 |
Represent the protein/ligand binding mode, centered on the ligand
Dashed lines represents hydrogen bonds and metal interactions
Green residue labels for amino acids with hydrophobic contacts (green lines) to the ligand
Ligand | Protein | Interaction | |||
---|---|---|---|---|---|
Atom | Atom | Residue | Distance (Å) | Angle (°) | Type |
C1C | CB | PRO- 55 | 3.95 | 0 | Hydrophobic |
C4C | CG | PRO- 55 | 4.41 | 0 | Hydrophobic |
O3C | O | PRO- 55 | 2.89 | 145.55 | H-Bond (Ligand Donor) |
O2C | N | LEU- 57 | 2.82 | 154.02 | H-Bond (Protein Donor) |
O2C | OE2 | GLU- 59 | 3.45 | 163.44 | H-Bond (Ligand Donor) |
O2C | OE1 | GLU- 59 | 2.67 | 133.4 | H-Bond (Ligand Donor) |
N3 | OG | SER- 86 | 3.13 | 142.72 | H-Bond (Ligand Donor) |
O2 | OG | SER- 86 | 3.02 | 155.3 | H-Bond (Protein Donor) |
C1C | CG | LYS- 119 | 4.12 | 0 | Hydrophobic |
O4' | NZ | LYS- 119 | 3.2 | 169.15 | H-Bond (Protein Donor) |
C4C | CB | ASP- 139 | 4.12 | 0 | Hydrophobic |
O3C | N | SER- 140 | 3.02 | 157.92 | H-Bond (Protein Donor) |
C1' | CA | GLY- 188 | 4.22 | 0 | Hydrophobic |
C6' | CB | LEU- 214 | 3.67 | 0 | Hydrophobic |
O2A | OH | TYR- 234 | 2.8 | 125 | H-Bond (Protein Donor) |
C6' | CB | TYR- 234 | 4.13 | 0 | Hydrophobic |
C5' | CD2 | TYR- 234 | 4.14 | 0 | Hydrophobic |
O4' | OE1 | GLU- 237 | 2.67 | 164.12 | H-Bond (Ligand Donor) |
O6' | OE1 | GLU- 237 | 2.75 | 158.27 | H-Bond (Ligand Donor) |
C1' | CE | MET- 274 | 3.77 | 0 | Hydrophobic |
C5' | CE | MET- 274 | 3.87 | 0 | Hydrophobic |
O1A | MN | MN- 330 | 2.29 | 0 | Metal Acceptor |
O2B | MN | MN- 330 | 2.68 | 0 | Metal Acceptor |
O6' | O | HOH- 333 | 3.14 | 179.96 | H-Bond (Protein Donor) |