2.900 Å
X-ray
2003-11-09
Name: | Purine nucleoside phosphorylase |
---|---|
ID: | PNPH_HUMAN |
AC: | P00491 |
Organism: | Homo sapiens |
Reign: | Eukaryota |
TaxID: | 9606 |
EC Number: | 2.4.2.1 |
Chain Name: | Percentage of Residues within binding site |
---|---|
E | 100 % |
B-Factor: | 31.803 |
---|---|
Number of residues: | 31 |
Including | |
Standard Amino Acids: | 31 |
Non Standard Amino Acids: | 0 |
Water Molecules: | 0 |
Cofactors: | |
Metals: |
Ligandability | Volume (Å3) |
---|---|
1.127 | 769.500 |
% Hydrophobic | % Polar |
---|---|
48.25 | 51.75 |
According to VolSite |
HET Code: | GMP |
---|---|
Formula: | C10H13N5O5 |
Molecular weight: | 283.241 g/mol |
DrugBank ID: | DB02857 |
Buried Surface Area: | 70.67 % |
Polar Surface area: | 155.22 Å2 |
Number of | |
---|---|
H-Bond Acceptors: | 8 |
H-Bond Donors: | 5 |
Rings: | 3 |
Aromatic rings: | 1 |
Anionic atoms: | 0 |
Cationic atoms: | 0 |
Rule of Five Violation: | 0 |
Rotatable Bonds: | 2 |
X | Y | Z |
---|---|---|
53.0402 | 127.798 | 54.8202 |
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 |
O3' | OH | TYR- 88 | 3.28 | 164.08 | H-Bond (Protein Donor) |
C1' | CB | ALA- 116 | 4.18 | 0 | Hydrophobic |
C5' | CZ | PHE- 200 | 3.41 | 0 | Hydrophobic |
N2 | OE1 | GLU- 201 | 2.63 | 145.83 | H-Bond (Ligand Donor) |
N2 | OE2 | GLU- 201 | 3.05 | 125.4 | H-Bond (Ligand Donor) |
O2' | N | MET- 219 | 3.08 | 149.77 | H-Bond (Protein Donor) |
C2' | SD | MET- 219 | 4.06 | 0 | Hydrophobic |
N7 | ND2 | ASN- 243 | 3.16 | 130.4 | H-Bond (Protein Donor) |
O6 | ND2 | ASN- 243 | 2.89 | 143.19 | H-Bond (Protein Donor) |
C5' | CB | HIS- 257 | 3.38 | 0 | Hydrophobic |