1.600 Å
X-ray
2004-04-02
Name: | MutT/nudix family protein |
---|---|
ID: | Q9RVK2_DEIRA |
AC: | Q9RVK2 |
Organism: | Deinococcus radiodurans |
Reign: | Bacteria |
TaxID: | 243230 |
EC Number: | / |
Chain Name: | Percentage of Residues within binding site |
---|---|
A | 81 % |
B | 19 % |
B-Factor: | 24.381 |
---|---|
Number of residues: | 32 |
Including | |
Standard Amino Acids: | 31 |
Non Standard Amino Acids: | 1 |
Water Molecules: | 0 |
Cofactors: | |
Metals: | MG |
Ligandability | Volume (Å3) |
---|---|
0.119 | 405.000 |
% Hydrophobic | % Polar |
---|---|
46.67 | 53.33 |
According to VolSite |
HET Code: | GNP |
---|---|
Formula: | C10H13N6O13P3 |
Molecular weight: | 518.164 g/mol |
DrugBank ID: | DB02082 |
Buried Surface Area: | 58.6 % |
Polar Surface area: | 338.36 Å2 |
Number of | |
---|---|
H-Bond Acceptors: | 16 |
H-Bond Donors: | 5 |
Rings: | 3 |
Aromatic rings: | 1 |
Anionic atoms: | 4 |
Cationic atoms: | 0 |
Rule of Five Violation: | 2 |
Rotatable Bonds: | 8 |
X | Y | Z |
---|---|---|
46.661 | 1.11509 | 27.5423 |
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 |
C3' | CE | MET- 1 | 3.87 | 0 | Hydrophobic |
C4' | CG | GLU- 2 | 3.52 | 0 | Hydrophobic |
C1' | CB | ASP- 4 | 3.99 | 0 | Hydrophobic |
O3' | NH2 | ARG- 6 | 3.27 | 164.42 | H-Bond (Protein Donor) |
O2B | OG | SER- 49 | 2.9 | 135.84 | H-Bond (Protein Donor) |
DuAr | DuAr | PHE- 87 | 3.86 | 0 | Aromatic Face/Face |
C2' | CZ | PHE- 87 | 3.26 | 0 | Hydrophobic |
O6 | OD2 | ASP- 89 | 2.87 | 144.7 | H-Bond (Protein Donor) |
C3' | CD1 | ILE- 93 | 3.68 | 0 | Hydrophobic |
O1B | NH1 | ARG- 95 | 2.93 | 126.81 | H-Bond (Protein Donor) |