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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:

4c36

1.980 Å

X-ray

2013-08-21

Interactomes:
Molecular Function:
Binding Site :

Uniprot Annotation

Name:cAMP-dependent protein kinase catalytic subunit alpha
ID:KAPCA_BOVIN
AC:P00517
Organism:Bos taurus
Reign:Eukaryota
TaxID:9913
EC Number:2.7.11.11


Chains:

Chain Name:Percentage of Residues
within binding site
A96 %
I4 %


Ligand binding site composition:

B-Factor:27.139
Number of residues:29
Including
Standard Amino Acids: 27
Non Standard Amino Acids: 0
Water Molecules: 2
Cofactors:
Metals:

Cavity properties

LigandabilityVolume (Å3)
0.818455.625

% Hydrophobic% Polar
52.5947.41
According to VolSite

Ligand :
4c36_1 Structure
HET Code: ZO9
Formula: C13H13N5O
Molecular weight: 255.275 g/mol
DrugBank ID: -
Buried Surface Area:80.26 %
Polar Surface area: 82.76 Å2
Number of
H-Bond Acceptors: 4
H-Bond Donors: 1
Rings: 4
Aromatic rings: 3
Anionic atoms: 0
Cationic atoms: 0
Rule of Five Violation: 0
Rotatable Bonds: 3

Mass center Coordinates

XYZ
-28.9779-9.90011-3.09595


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
C8CBLEU- 494.20Hydrophobic
C9CZTYR- 544.010Hydrophobic
C9CBVAL- 573.880Hydrophobic
C3CG2VAL- 573.760Hydrophobic
CCDLYS- 723.970Hydrophobic
C5CD1LEU- 1203.660Hydrophobic
N4OGLU- 1212.88151.9H-Bond
(Ligand Donor)
N3NLEU- 1233.12166.95H-Bond
(Protein Donor)
C7CGGLU- 1274.430Hydrophobic
C7SDMET- 1733.880Hydrophobic
C3CBTHR- 1834.490Hydrophobic
C5CBTHR- 1834.080Hydrophobic
CCBASP- 1843.660Hydrophobic
C8CE2PHE- 3274.050Hydrophobic
C10CD2PHE- 3274.020Hydrophobic