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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:

5aqz

1.650 Å

X-ray

2015-09-22

Interactomes:
Molecular Function:
Binding Site :

Uniprot Annotation

Name:Heat shock 70 kDa protein 1A
ID:HS71A_HUMAN
AC:P0DMV8
Organism:Homo sapiens
Reign:Eukaryota
TaxID:9606
EC Number:/


Chains:

Chain Name:Percentage of Residues
within binding site
A100 %


Ligand binding site composition:

B-Factor:31.230
Number of residues:29
Including
Standard Amino Acids: 26
Non Standard Amino Acids: 0
Water Molecules: 3
Cofactors:
Metals:

Cavity properties

LigandabilityVolume (Å3)
1.0531326.375

% Hydrophobic% Polar
39.9560.05
According to VolSite

Ligand :
5aqz_1 Structure
HET Code: SGV
Formula: C12H15N5O5
Molecular weight: 309.278 g/mol
DrugBank ID: -
Buried Surface Area:59.54 %
Polar Surface area: 169.73 Å2
Number of
H-Bond Acceptors: 8
H-Bond Donors: 5
Rings: 3
Aromatic rings: 2
Anionic atoms: 0
Cationic atoms: 0
Rule of Five Violation: 0
Rotatable Bonds: 3

Mass center Coordinates

XYZ
15.3253-10.6223-10.0006


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
O2'OE2GLU- 2682.69169.63H-Bond
(Ligand Donor)
O2'NZLYS- 2712.78150.65H-Bond
(Protein Donor)
O3'NZLYS- 2713.41130.02H-Bond
(Protein Donor)
C5CGARG- 2723.710Hydrophobic
N1OGSER- 2752.67173.34H-Bond
(Protein Donor)
C5CDARG- 3424.090Hydrophobic
N3OHOH- 23343.06179.95H-Bond
(Protein Donor)