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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Protein Data Bank Entry:

4f9g

2.950 Å

X-ray

2012-05-18

Interactomes:
Molecular Function:
Binding Site :

Uniprot Annotation

Name:Stimulator of interferon genes protein
ID:STING_HUMAN
AC:Q86WV6
Organism:Homo sapiens
Reign:Eukaryota
TaxID:9606
EC Number:/


Chains:

Chain Name:Percentage of Residues
within binding site
A49 %
C51 %


Ligand binding site composition:

B-Factor:82.097
Number of residues:35
Including
Standard Amino Acids: 35
Non Standard Amino Acids: 0
Water Molecules: 0
Cofactors:
Metals:

Cavity properties

LigandabilityVolume (Å3)
0.789367.875

% Hydrophobic% Polar
28.4471.56
According to VolSite

Ligand :
4f9g_1 Structure
HET Code: C2E
Formula: C20H22N10O14P2
Molecular weight: 688.395 g/mol
DrugBank ID: -
Buried Surface Area:42.82 %
Polar Surface area: 366.32 Å2
Number of
H-Bond Acceptors: 20
H-Bond Donors: 6
Rings: 7
Aromatic rings: 2
Anionic atoms: 2
Cationic atoms: 0
Rule of Five Violation: 3
Rotatable Bonds: 2

Mass center Coordinates

XYZ
15.80929.5364312.6918


Binding mode :
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Binding mode
BioSolveIT Image generated by PoseView
Protein
Binding Site
Ligand
Interaction pattern
hydrophobic (CA)
aromatic (CZ)
hydrogen bond acceptor (O)
hydrogen bond acceptor/donor (OG)
hydrogen bond donor (N)
positively ionized (NZ)
negatively ionized (OD1)
metal (ZN)

Legend:

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

Image generated using PoseView by BioSolveIT
BioSolveIT


LigandProteinInteraction
AtomAtomResidueDistance
(Å)
Angle (°)Type
C5'CBSER- 1624.250Hydrophobic
C5ACBSER- 1624.340Hydrophobic
C1'CD1TYR- 1634.040Hydrophobic
C1ACD1TYR- 1634.140Hydrophobic
C1'CBTYR- 1674.330Hydrophobic
C1ACBTYR- 1674.290Hydrophobic
C2'CBTHR- 2634.220Hydrophobic
C2ACBTHR- 2634.110Hydrophobic
O2'OG1THR- 2632.85173.61H-Bond
(Ligand Donor)
O2AOG1THR- 2632.82173.26H-Bond
(Ligand Donor)
N3OG1THR- 2633.43161H-Bond
(Protein Donor)