2.350 Å
X-ray
2008-07-08
Name: | tRNA(Met) cytidine acetyltransferase TmcA |
---|---|
ID: | TMCA_ECOLI |
AC: | P76562 |
Organism: | Escherichia coli |
Reign: | Bacteria |
TaxID: | 83333 |
EC Number: | / |
Chain Name: | Percentage of Residues within binding site |
---|---|
A | 100 % |
B-Factor: | 42.038 |
---|---|
Number of residues: | 33 |
Including | |
Standard Amino Acids: | 32 |
Non Standard Amino Acids: | 0 |
Water Molecules: | 1 |
Cofactors: | |
Metals: |
Ligandability | Volume (Å3) |
---|---|
0.392 | 2109.375 |
% Hydrophobic | % Polar |
---|---|
40.16 | 59.84 |
According to VolSite |
HET Code: | ADP |
---|---|
Formula: | C10H12N5O10P2 |
Molecular weight: | 424.177 g/mol |
DrugBank ID: | - |
Buried Surface Area: | 68.44 % |
Polar Surface area: | 260.7 Å2 |
Number of | |
---|---|
H-Bond Acceptors: | 14 |
H-Bond Donors: | 3 |
Rings: | 3 |
Aromatic rings: | 2 |
Anionic atoms: | 3 |
Cationic atoms: | 0 |
Rule of Five Violation: | 1 |
Rotatable Bonds: | 6 |
X | Y | Z |
---|---|---|
37.4191 | 82.0505 | 107.959 |
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 |
N6 | O | ALA- 175 | 3.1 | 164.5 | H-Bond (Ligand Donor) |
N7 | NE2 | GLN- 180 | 3.41 | 147.05 | H-Bond (Protein Donor) |
N6 | OE1 | GLN- 180 | 2.82 | 150.66 | H-Bond (Ligand Donor) |
O2B | N | GLY- 202 | 3.32 | 165.15 | H-Bond (Protein Donor) |
O3B | N | ARG- 203 | 3.07 | 148.78 | H-Bond (Protein Donor) |
O3A | N | GLY- 204 | 2.72 | 137.53 | H-Bond (Protein Donor) |
O1B | NZ | LYS- 205 | 3.83 | 0 | Ionic (Protein Cationic) |
O3B | NZ | LYS- 205 | 2.62 | 0 | Ionic (Protein Cationic) |
O3B | NZ | LYS- 205 | 2.62 | 152.62 | H-Bond (Protein Donor) |
O1B | N | SER- 206 | 2.99 | 164.68 | H-Bond (Protein Donor) |
O1B | OG | SER- 206 | 3.28 | 157.91 | H-Bond (Protein Donor) |
O1A | N | ALA- 207 | 3.33 | 155.44 | H-Bond (Protein Donor) |
C3' | CG2 | VAL- 232 | 4.22 | 0 | Hydrophobic |
C2' | CG1 | VAL- 232 | 3.67 | 0 | Hydrophobic |
C2' | CE1 | PHE- 236 | 4.31 | 0 | Hydrophobic |
C1' | CG1 | ILE- 318 | 3.77 | 0 | Hydrophobic |
C4' | CG1 | ILE- 318 | 3.81 | 0 | Hydrophobic |
C4' | CD | ARG- 319 | 3.95 | 0 | Hydrophobic |