1.900 Å
X-ray
2008-09-02
Name: | Gibberellin receptor GID1 |
---|---|
ID: | GID1_ORYSJ |
AC: | Q6L545 |
Organism: | Oryza sativa subsp. japonica |
Reign: | Eukaryota |
TaxID: | 39947 |
EC Number: | / |
Chain Name: | Percentage of Residues within binding site |
---|---|
F | 100 % |
B-Factor: | 23.550 |
---|---|
Number of residues: | 37 |
Including | |
Standard Amino Acids: | 35 |
Non Standard Amino Acids: | 0 |
Water Molecules: | 2 |
Cofactors: | |
Metals: |
Ligandability | Volume (Å3) |
---|---|
0.732 | 438.750 |
% Hydrophobic | % Polar |
---|---|
49.23 | 50.77 |
According to VolSite |
HET Code: | GA3 |
---|---|
Formula: | C19H21O6 |
Molecular weight: | 345.366 g/mol |
DrugBank ID: | DB07814 |
Buried Surface Area: | 78.15 % |
Polar Surface area: | 106.89 Å2 |
Number of | |
---|---|
H-Bond Acceptors: | 6 |
H-Bond Donors: | 2 |
Rings: | 5 |
Aromatic rings: | 0 |
Anionic atoms: | 1 |
Cationic atoms: | 0 |
Rule of Five Violation: | 0 |
Rotatable Bonds: | 1 |
X | Y | Z |
---|---|---|
35.9559 | 44.271 | 56.0726 |
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 |
C11 | CG2 | ILE- 24 | 3.72 | 0 | Hydrophobic |
C12 | CB | LYS- 28 | 4.15 | 0 | Hydrophobic |
C15 | CD2 | TYR- 31 | 4.2 | 0 | Hydrophobic |
C9 | CE2 | TYR- 31 | 4.45 | 0 | Hydrophobic |
O71 | N | GLY- 122 | 3.12 | 122.03 | H-Bond (Protein Donor) |
O71 | OG | SER- 123 | 2.71 | 167.64 | H-Bond (Protein Donor) |
C3 | CD1 | ILE- 133 | 3.8 | 0 | Hydrophobic |
C3 | CZ | TYR- 134 | 4.48 | 0 | Hydrophobic |
O31 | OH | TYR- 134 | 2.58 | 141.88 | H-Bond (Ligand Donor) |
O71 | OG | SER- 198 | 3.11 | 125.2 | H-Bond (Protein Donor) |
O72 | OG | SER- 198 | 2.81 | 175.33 | H-Bond (Protein Donor) |
C18 | CB | SER- 198 | 3.95 | 0 | Hydrophobic |
C12 | CB | PHE- 245 | 4.49 | 0 | Hydrophobic |
C14 | CG2 | VAL- 246 | 3.92 | 0 | Hydrophobic |
O13 | OD2 | ASP- 250 | 3.08 | 156.87 | H-Bond (Ligand Donor) |
C3 | CD1 | LEU- 330 | 4.07 | 0 | Hydrophobic |