1.840 Å
X-ray
2007-08-02
| Name: | 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase 1 |
|---|---|
| ID: | MTN1_ARATH |
| AC: | Q9T0I8 |
| Organism: | Arabidopsis thaliana |
| Reign: | Eukaryota |
| TaxID: | 3702 |
| EC Number: | 3.2.2.9 |
| Chain Name: | Percentage of Residues within binding site |
|---|---|
| A | 90 % |
| B | 10 % |
| B-Factor: | 17.643 |
|---|---|
| Number of residues: | 33 |
| Including | |
| Standard Amino Acids: | 30 |
| Non Standard Amino Acids: | 0 |
| Water Molecules: | 3 |
| Cofactors: | |
| Metals: | |
| Ligandability | Volume (Å3) |
|---|---|
| 0.832 | 405.000 |
| % Hydrophobic | % Polar |
|---|---|
| 55.00 | 45.00 |
| According to VolSite | |

| HET Code: | MTH |
|---|---|
| Formula: | C12H16N4O3S |
| Molecular weight: | 296.345 g/mol |
| DrugBank ID: | DB02933 |
| Buried Surface Area: | 79.05 % |
| Polar Surface area: | 131.72 Å2 |
| Number of | |
|---|---|
| H-Bond Acceptors: | 7 |
| H-Bond Donors: | 3 |
| Rings: | 3 |
| Aromatic rings: | 2 |
| Anionic atoms: | 0 |
| Cationic atoms: | 0 |
| Rule of Five Violation: | 0 |
| Rotatable Bonds: | 3 |
| X | Y | Z |
|---|---|---|
| 10.907 | -0.8159 | -0.71265 |
Image generated by PoseView
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 |
| CS | SD | MET- 35 | 3.85 | 0 | Hydrophobic |
| C4' | CE | MET- 35 | 3.9 | 0 | Hydrophobic |
| CS | CG1 | VAL- 90 | 3.97 | 0 | Hydrophobic |
| S5' | CG2 | VAL- 90 | 4.03 | 0 | Hydrophobic |
| C3' | CG1 | VAL- 90 | 3.95 | 0 | Hydrophobic |
| S5' | CG2 | ILE- 143 | 4.09 | 0 | Hydrophobic |
| CS | CD1 | ILE- 145 | 4.4 | 0 | Hydrophobic |
| CS | CE1 | PHE- 148 | 3.69 | 0 | Hydrophobic |
| C5 | CD1 | LEU- 181 | 3.59 | 0 | Hydrophobic |
| C5' | CD1 | LEU- 181 | 3.89 | 0 | Hydrophobic |
| N1 | NZ | LYS- 199 | 2.78 | 159.38 | H-Bond (Protein Donor) |
| DuAr | NZ | LYS- 199 | 4 | 93.94 | Pi/Cation |
| O2' | N | MET- 201 | 2.93 | 146.95 | H-Bond (Protein Donor) |
| S5' | SD | MET- 201 | 3.52 | 0 | Hydrophobic |
| C3' | SD | MET- 201 | 3.79 | 0 | Hydrophobic |
| O2' | OE1 | GLU- 202 | 2.73 | 151.62 | H-Bond (Ligand Donor) |
| O3' | OE2 | GLU- 202 | 2.67 | 152.52 | H-Bond (Ligand Donor) |
| O3' | OE1 | GLU- 202 | 3.1 | 142.41 | H-Bond (Ligand Donor) |
| N6 | OD1 | ASP- 225 | 2.94 | 163.15 | H-Bond (Ligand Donor) |