2.150 Å
X-ray
2000-08-30
Name: | Nitrogenase iron protein 1 |
---|---|
ID: | NIFH1_AZOVI |
AC: | P00459 |
Organism: | Azotobacter vinelandii |
Reign: | Bacteria |
TaxID: | 354 |
EC Number: | 1.18.6.1 |
Chain Name: | Percentage of Residues within binding site |
---|---|
A | 97 % |
B | 3 % |
B-Factor: | 34.452 |
---|---|
Number of residues: | 32 |
Including | |
Standard Amino Acids: | 31 |
Non Standard Amino Acids: | 1 |
Water Molecules: | 0 |
Cofactors: | |
Metals: | MG |
Ligandability | Volume (Å3) |
---|---|
0.841 | 938.250 |
% Hydrophobic | % Polar |
---|---|
39.93 | 60.07 |
According to VolSite |
HET Code: | ADP |
---|---|
Formula: | C10H12N5O10P2 |
Molecular weight: | 424.177 g/mol |
DrugBank ID: | - |
Buried Surface Area: | 61.52 % |
Polar Surface area: | 260.7 Å2 |
Number of | |
---|---|
H-Bond Acceptors: | 14 |
H-Bond Donors: | 3 |
Rings: | 3 |
Aromatic rings: | 2 |
Anionic atoms: | 3 |
Cationic atoms: | 0 |
Rule of Five Violation: | 1 |
Rotatable Bonds: | 6 |
X | Y | Z |
---|---|---|
33.0822 | 1.11926 | 27.1173 |
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 | GLY- 12 | 3.12 | 141.11 | H-Bond (Protein Donor) |
O1B | N | GLY- 14 | 3.25 | 161.03 | H-Bond (Protein Donor) |
O1B | NZ | LYS- 15 | 2.87 | 159.63 | H-Bond (Protein Donor) |
O1B | N | LYS- 15 | 2.98 | 154.05 | H-Bond (Protein Donor) |
O1B | NZ | LYS- 15 | 2.87 | 0 | Ionic (Protein Cationic) |
O2B | NZ | LYS- 15 | 3.92 | 0 | Ionic (Protein Cationic) |
O3B | N | SER- 16 | 2.99 | 145.44 | H-Bond (Protein Donor) |
O2A | N | THR- 17 | 2.84 | 159.12 | H-Bond (Protein Donor) |
N7 | ND2 | ASN- 185 | 3.02 | 166.79 | H-Bond (Protein Donor) |
N6 | OD1 | ASN- 185 | 3.2 | 139.41 | H-Bond (Ligand Donor) |
N6 | O | PRO- 212 | 2.78 | 147.63 | H-Bond (Ligand Donor) |
N1 | N | ASP- 214 | 3.15 | 142.75 | H-Bond (Protein Donor) |
N3 | NE2 | GLN- 218 | 3.3 | 157.99 | H-Bond (Protein Donor) |
O3B | MG | MG- 5292 | 2.27 | 0 | Metal Acceptor |