2.100 Å
X-ray
2008-02-07
Name: | Octopine dehydrogenase |
---|---|
ID: | OCDH_PECMA |
AC: | Q9BHM6 |
Organism: | Pecten maximus |
Reign: | Eukaryota |
TaxID: | 6579 |
EC Number: | / |
Chain Name: | Percentage of Residues within binding site |
---|---|
A | 100 % |
B-Factor: | 15.947 |
---|---|
Number of residues: | 35 |
Including | |
Standard Amino Acids: | 31 |
Non Standard Amino Acids: | 0 |
Water Molecules: | 4 |
Cofactors: | |
Metals: |
Ligandability | Volume (Å3) |
---|---|
0.066 | 263.250 |
% Hydrophobic | % Polar |
---|---|
42.31 | 57.69 |
According to VolSite |
HET Code: | NAD |
---|---|
Formula: | C21H26N7O14P2 |
Molecular weight: | 662.417 g/mol |
DrugBank ID: | - |
Buried Surface Area: | 38.3 % |
Polar Surface area: | 343.54 Å2 |
Number of | |
---|---|
H-Bond Acceptors: | 18 |
H-Bond Donors: | 6 |
Rings: | 5 |
Aromatic rings: | 3 |
Anionic atoms: | 2 |
Cationic atoms: | 1 |
Rule of Five Violation: | 3 |
Rotatable Bonds: | 11 |
X | Y | Z |
---|---|---|
88.9167 | 34.5572 | 53.5906 |
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 |
O2A | N | ASN- 12 | 3.2 | 170.91 | H-Bond (Protein Donor) |
O1N | ND2 | ASN- 12 | 3.16 | 152.34 | H-Bond (Protein Donor) |
O2N | N | GLY- 13 | 2.94 | 161.83 | H-Bond (Protein Donor) |
C2B | CD2 | PHE- 35 | 4.12 | 0 | Hydrophobic |
O3B | OE2 | GLU- 38 | 3.13 | 165.93 | H-Bond (Ligand Donor) |
O2B | OE1 | GLU- 38 | 3.04 | 162.96 | H-Bond (Ligand Donor) |
C5N | CB | LEU- 144 | 3.96 | 0 | Hydrophobic |
C3N | CD2 | LEU- 144 | 3.64 | 0 | Hydrophobic |
O7N | N | CYS- 148 | 3.28 | 161.37 | H-Bond (Protein Donor) |
O2N | O | HOH- 425 | 2.88 | 154.01 | H-Bond (Protein Donor) |
O1A | O | HOH- 625 | 3.05 | 179.96 | H-Bond (Protein Donor) |