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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:

3pvu

2.480 Å

X-ray

2010-12-07

Interactomes:
Molecular Function:
Binding Site :

Uniprot Annotation

Name:Beta-adrenergic receptor kinase 1
ID:ARBK1_BOVIN
AC:P21146
Organism:Bos taurus
Reign:Eukaryota
TaxID:9913
EC Number:2.7.11.15


Chains:

Chain Name:Percentage of Residues
within binding site
A100 %


Ligand binding site composition:

B-Factor:95.587
Number of residues:34
Including
Standard Amino Acids: 34
Non Standard Amino Acids: 0
Water Molecules: 0
Cofactors:
Metals:

Cavity properties

LigandabilityVolume (Å3)
0.805381.375

% Hydrophobic% Polar
49.5650.44
According to VolSite

Ligand :
3pvu_1 Structure
HET Code: QRW
Formula: C24H21F3N6O
Molecular weight: 466.458 g/mol
DrugBank ID: -
Buried Surface Area:59.15 %
Polar Surface area: 84.72 Å2
Number of
H-Bond Acceptors: 5
H-Bond Donors: 2
Rings: 4
Aromatic rings: 4
Anionic atoms: 0
Cationic atoms: 0
Rule of Five Violation: 0
Rotatable Bonds: 8

Mass center Coordinates

XYZ
39.1564-7.7102653.1286


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
C2CG2ILE- 1974.20Hydrophobic
O22NPHE- 2022.88146.78H-Bond
(Protein Donor)
C30CE2PHE- 2023.40Hydrophobic
O22NGLY- 2033.5144.9H-Bond
(Protein Donor)
C1CG2VAL- 20540Hydrophobic
C2CG1VAL- 2053.450Hydrophobic
C16CG2VAL- 2053.850Hydrophobic
N9NZLYS- 2203.25161H-Bond
(Protein Donor)
C16CDLYS- 2204.490Hydrophobic
C17CGLYS- 2204.480Hydrophobic
DuArNZLYS- 2203.5831Pi/Cation
C18CD2LEU- 2223.690Hydrophobic
F32CD2LEU- 23540Hydrophobic
C6CG1VAL- 2553.960Hydrophobic
C6CD1LEU- 2714.270Hydrophobic
C12CD1LEU- 3243.870Hydrophobic
C1CD1LEU- 3243.490Hydrophobic
C13CBASP- 3354.090Hydrophobic
F32CD1LEU- 3383.290Hydrophobic