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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:

1h62

1.900 Å

X-ray

2001-06-04

Interactomes:
Molecular Function:
Binding Site :

Uniprot Annotation

Name:Pentaerythritol tetranitrate reductase
ID:P71278_ENTCL
AC:P71278
Organism:Enterobacter cloacae
Reign:Bacteria
TaxID:550
EC Number:/


Chains:

Chain Name:Percentage of Residues
within binding site
A100 %


Ligand binding site composition:

B-Factor:21.456
Number of residues:23
Including
Standard Amino Acids: 22
Non Standard Amino Acids: 1
Water Molecules: 0
Cofactors: FMN
Metals:

Cavity properties

LigandabilityVolume (Å3)
0.340357.750

% Hydrophobic% Polar
42.4557.55
According to VolSite

Ligand :
1h62_1 Structure
HET Code: ANB
Formula: C19H24O2
Molecular weight: 284.393 g/mol
DrugBank ID: DB07373
Buried Surface Area:62.91 %
Polar Surface area: 34.14 Å2
Number of
H-Bond Acceptors: 2
H-Bond Donors: 0
Rings: 4
Aromatic rings: 0
Anionic atoms: 0
Cationic atoms: 0
Rule of Five Violation: 0
Rotatable Bonds: 0

Mass center Coordinates

XYZ
21.52511.993118.5816


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
C6CBTHR- 263.510Hydrophobic
C15CE2TYR- 683.720Hydrophobic
C7CE2TYR- 683.830Hydrophobic
C16CDARG- 1423.920Hydrophobic
O1NE2HIS- 1812.69150.48H-Bond
(Protein Donor)
O1ND1HIS- 1842.7160.22H-Bond
(Protein Donor)
C19CD1LEU- 2753.970Hydrophobic
C18CE2TYR- 3514.040Hydrophobic
C7CE1TYR- 3513.850Hydrophobic
C15CZTYR- 3513.830Hydrophobic
C6C6FMN- 13653.680Hydrophobic
C19C9AFMN- 13653.490Hydrophobic