2.400 Å
X-ray
2007-06-07
Name: | 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase |
---|---|
ID: | ISPE_AQUAE |
AC: | O67060 |
Organism: | Aquifex aeolicus |
Reign: | Bacteria |
TaxID: | 224324 |
EC Number: | / |
Chain Name: | Percentage of Residues within binding site |
---|---|
A | 100 % |
B-Factor: | 39.968 |
---|---|
Number of residues: | 27 |
Including | |
Standard Amino Acids: | 26 |
Non Standard Amino Acids: | 0 |
Water Molecules: | 1 |
Cofactors: | |
Metals: |
Ligandability | Volume (Å3) |
---|---|
0.754 | 698.625 |
% Hydrophobic | % Polar |
---|---|
40.10 | 59.90 |
According to VolSite |
HET Code: | V12 |
---|---|
Formula: | C18H20N6O5 |
Molecular weight: | 400.389 g/mol |
DrugBank ID: | - |
Buried Surface Area: | 44.74 % |
Polar Surface area: | 166.16 Å2 |
Number of | |
---|---|
H-Bond Acceptors: | 8 |
H-Bond Donors: | 5 |
Rings: | 4 |
Aromatic rings: | 2 |
Anionic atoms: | 0 |
Cationic atoms: | 0 |
Rule of Five Violation: | 1 |
Rotatable Bonds: | 5 |
X | Y | Z |
---|---|---|
16.1204 | -10.7805 | 20.1011 |
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 |
CBA | CE2 | TYR- 24 | 4 | 0 | Hydrophobic |
CAZ | CZ | TYR- 24 | 3.74 | 0 | Hydrophobic |
OAC | ND1 | HIS- 25 | 2.83 | 169.14 | H-Bond (Protein Donor) |
NAO | N | HIS- 25 | 3.15 | 149.68 | H-Bond (Protein Donor) |
NAA | O | HIS- 25 | 3.04 | 160.21 | H-Bond (Ligand Donor) |
NAA | O | LYS- 145 | 3.19 | 163.82 | H-Bond (Ligand Donor) |
CAH | CB | SER- 170 | 3.74 | 0 | Hydrophobic |
CB0 | CG2 | THR- 171 | 4.41 | 0 | Hydrophobic |
CAL | CB | THR- 171 | 3.62 | 0 | Hydrophobic |
CBC | CD1 | TYR- 175 | 3.53 | 0 | Hydrophobic |