2.100 Å
X-ray
2010-04-22
Name: | Phosphoenolpyruvate carboxykinase, cytosolic [GTP] |
---|---|
ID: | PCKGC_RAT |
AC: | P07379 |
Organism: | Rattus norvegicus |
Reign: | Eukaryota |
TaxID: | 10116 |
EC Number: | 4.1.1.32 |
Chain Name: | Percentage of Residues within binding site |
---|---|
A | 100 % |
B-Factor: | 12.685 |
---|---|
Number of residues: | 34 |
Including | |
Standard Amino Acids: | 31 |
Non Standard Amino Acids: | 2 |
Water Molecules: | 1 |
Cofactors: | |
Metals: | MN MN |
Ligandability | Volume (Å3) |
---|---|
0.494 | 604.125 |
% Hydrophobic | % Polar |
---|---|
44.13 | 55.87 |
According to VolSite |
HET Code: | GDP |
---|---|
Formula: | C10H12N5O11P2 |
Molecular weight: | 440.177 g/mol |
DrugBank ID: | DB04315 |
Buried Surface Area: | 62.23 % |
Polar Surface area: | 276.39 Å2 |
Number of | |
---|---|
H-Bond Acceptors: | 14 |
H-Bond Donors: | 4 |
Rings: | 3 |
Aromatic rings: | 1 |
Anionic atoms: | 3 |
Cationic atoms: | 0 |
Rule of Five Violation: | 1 |
Rotatable Bonds: | 6 |
X | Y | Z |
---|---|---|
12.0608 | 0.962 | 11.6785 |
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 |
O2B | N | ALA- 287 | 2.71 | 157.69 | H-Bond (Protein Donor) |
C5' | CB | ALA- 287 | 4.49 | 0 | Hydrophobic |
O3B | N | GLY- 289 | 3.14 | 131.12 | H-Bond (Protein Donor) |
O3A | N | GLY- 289 | 2.78 | 127.29 | H-Bond (Protein Donor) |
O3B | N | LYS- 290 | 2.91 | 158.3 | H-Bond (Protein Donor) |
O1B | N | THR- 291 | 2.93 | 160.64 | H-Bond (Protein Donor) |
O2A | N | ASN- 292 | 2.9 | 131.76 | H-Bond (Protein Donor) |
O6 | N | PHE- 530 | 2.93 | 170.93 | H-Bond (Protein Donor) |
C2' | CE1 | PHE- 530 | 4.21 | 0 | Hydrophobic |
O6 | ND2 | ASN- 533 | 2.94 | 154.88 | H-Bond (Protein Donor) |
O1B | MN | MN- 701 | 2.11 | 0 | Metal Acceptor |