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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:

1hak

3.000 Å

X-ray

1997-12-10

Interactomes:
Molecular Function:
Binding Site :

Uniprot Annotation

Name:Annexin A5
ID:ANXA5_HUMAN
AC:P08758
Organism:Homo sapiens
Reign:Eukaryota
TaxID:9606
EC Number:/


Chains:

Chain Name:Percentage of Residues
within binding site
A93 %
B7 %


Ligand binding site composition:

B-Factor:8.437
Number of residues:28
Including
Standard Amino Acids: 28
Non Standard Amino Acids: 0
Water Molecules: 0
Cofactors:
Metals:

Cavity properties

LigandabilityVolume (Å3)
0.475604.125

% Hydrophobic% Polar
41.9058.10
According to VolSite

Ligand :
1hak_1 Structure
HET Code: K21
Formula: C25H33N2O2S
Molecular weight: 425.607 g/mol
DrugBank ID: DB02929
Buried Surface Area:35.11 %
Polar Surface area: 59.28 Å2
Number of
H-Bond Acceptors: 3
H-Bond Donors: 1
Rings: 4
Aromatic rings: 2
Anionic atoms: 0
Cationic atoms: 1
Rule of Five Violation: 0
Rotatable Bonds: 6

Mass center Coordinates

XYZ
22.983916.9583-11.949


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
C43CD1LEU- 53.350Hydrophobic
C3CG2THR- 1183.990Hydrophobic
C33CG2THR- 1183.820Hydrophobic
C59CGPRO- 1193.850Hydrophobic
C6CGPRO- 1193.330Hydrophobic
C6CDARG- 1613.660Hydrophobic
C22CG1VAL- 2034.290Hydrophobic
C1CG2VAL- 2034.140Hydrophobic
O23NH2ARG- 2073.14159.37H-Bond
(Protein Donor)
C13CD1ILE- 2443.60Hydrophobic
S14CD1ILE- 2474.310Hydrophobic