2.800 Å
X-ray
2008-03-19
Name: | Deoxynucleoside kinase |
---|---|
ID: | DNK_DROME |
AC: | Q9XZT6 |
Organism: | Drosophila melanogaster |
Reign: | Eukaryota |
TaxID: | 7227 |
EC Number: | / |
Chain Name: | Percentage of Residues within binding site |
---|---|
B | 100 % |
B-Factor: | 34.856 |
---|---|
Number of residues: | 27 |
Including | |
Standard Amino Acids: | 27 |
Non Standard Amino Acids: | 0 |
Water Molecules: | 0 |
Cofactors: | |
Metals: |
Ligandability | Volume (Å3) |
---|---|
0.871 | 712.125 |
% Hydrophobic | % Polar |
---|---|
57.35 | 42.65 |
According to VolSite |
HET Code: | AZZ |
---|---|
Formula: | C10H13N5O4 |
Molecular weight: | 267.241 g/mol |
DrugBank ID: | DB00495 |
Buried Surface Area: | 60.33 % |
Polar Surface area: | 128.62 Å2 |
Number of | |
---|---|
H-Bond Acceptors: | 6 |
H-Bond Donors: | 2 |
Rings: | 2 |
Aromatic rings: | 0 |
Anionic atoms: | 1 |
Cationic atoms: | 1 |
Rule of Five Violation: | 0 |
Rotatable Bonds: | 3 |
X | Y | Z |
---|---|---|
10.3659 | -18.5129 | -7.57484 |
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 |
C2' | CD1 | ILE- 29 | 4.17 | 0 | Hydrophobic |
C5' | CG1 | VAL- 54 | 4.17 | 0 | Hydrophobic |
C5A | CH2 | TRP- 57 | 3.58 | 0 | Hydrophobic |
C5' | CZ3 | TRP- 57 | 4.15 | 0 | Hydrophobic |
C4' | CD1 | LEU- 66 | 4.23 | 0 | Hydrophobic |
C1' | CZ | PHE- 80 | 4.23 | 0 | Hydrophobic |
N3 | OE1 | GLN- 81 | 2.73 | 161.22 | H-Bond (Ligand Donor) |
O4 | NE2 | GLN- 81 | 2.93 | 172.91 | H-Bond (Protein Donor) |
C5A | CG1 | VAL- 84 | 3.99 | 0 | Hydrophobic |
C5A | CE | MET- 88 | 3.88 | 0 | Hydrophobic |
C5A | CD | ARG- 105 | 4.1 | 0 | Hydrophobic |
C5A | CB | ALA- 110 | 4.39 | 0 | Hydrophobic |
C5A | CD1 | PHE- 114 | 3.99 | 0 | Hydrophobic |
C2' | CE2 | PHE- 114 | 3.62 | 0 | Hydrophobic |