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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:

3uxh

1.530 Å

X-ray

2011-12-05

Interactomes:
Molecular Function:
Binding Site :

Uniprot Annotation

Name:Ribosyldihydronicotinamide dehydrogenase [quinone]
ID:NQO2_HUMAN
AC:P16083
Organism:Homo sapiens
Reign:Eukaryota
TaxID:9606
EC Number:/


Chains:

Chain Name:Percentage of Residues
within binding site
A50 %
B50 %


Ligand binding site composition:

B-Factor:21.857
Number of residues:30
Including
Standard Amino Acids: 27
Non Standard Amino Acids: 1
Water Molecules: 2
Cofactors: FAD
Metals:

Cavity properties

LigandabilityVolume (Å3)
1.051489.375

% Hydrophobic% Polar
59.3140.69
According to VolSite

Ligand :
3uxh_1 Structure
HET Code: UXH
Formula: C12H10ClN5O2
Molecular weight: 291.693 g/mol
DrugBank ID: -
Buried Surface Area:64.97 %
Polar Surface area: 128.32 Å2
Number of
H-Bond Acceptors: 5
H-Bond Donors: 3
Rings: 3
Aromatic rings: 2
Anionic atoms: 0
Cationic atoms: 0
Rule of Five Violation: 0
Rotatable Bonds: 1

Mass center Coordinates

XYZ
-3.8921-5.55255-15.7157


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
CL1CZ2TRP- 1053.520Hydrophobic
C8CZPHE- 1263.40Hydrophobic
C4CD1ILE- 1284.070Hydrophobic
N15OD1ASN- 1613.35141.95H-Bond
(Ligand Donor)
O16ND2ASN- 1612.73151.61H-Bond
(Protein Donor)
CL1C6FAD- 3023.230Hydrophobic
C9C1'FAD- 3024.120Hydrophobic
C3C1'FAD- 3023.970Hydrophobic