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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:

2cgf

2.200 Å

X-ray

2006-03-02

Interactomes:
Molecular Function:
Binding Site :

Uniprot Annotation

Name:ATP-dependent molecular chaperone HSP82
ID:HSP82_YEAST
AC:P02829
Organism:Saccharomyces cerevisiae
Reign:Eukaryota
TaxID:559292
EC Number:/


Chains:

Chain Name:Percentage of Residues
within binding site
A100 %


Ligand binding site composition:

B-Factor:9.680
Number of residues:28
Including
Standard Amino Acids: 28
Non Standard Amino Acids: 0
Water Molecules: 0
Cofactors:
Metals:

Cavity properties

LigandabilityVolume (Å3)
0.922405.000

% Hydrophobic% Polar
51.6748.33
According to VolSite

Ligand :
2cgf_1 Structure
HET Code: P2N
Formula: C17H18ClO5
Molecular weight: 337.775 g/mol
DrugBank ID: DB08346
Buried Surface Area:63.85 %
Polar Surface area: 86.66 Å2
Number of
H-Bond Acceptors: 5
H-Bond Donors: 1
Rings: 2
Aromatic rings: 1
Anionic atoms: 1
Cationic atoms: 0
Rule of Five Violation: 0
Rotatable Bonds: 0

Mass center Coordinates

XYZ
-19.90333.3774-5.27248


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
C10CBASN- 374.180Hydrophobic
C5CBASN- 373.560Hydrophobic
C13CBASP- 403.560Hydrophobic
C16CBALA- 414.140Hydrophobic
C3CBALA- 413.920Hydrophobic
C16CGLYS- 444.090Hydrophobic
O3OD2ASP- 793.28124.98H-Bond
(Ligand Donor)
C16CG2ILE- 823.40Hydrophobic
C8SDMET- 843.60Hydrophobic
C17CGMET- 843.990Hydrophobic
C7CEMET- 843.830Hydrophobic
C8CD2LEU- 934.090Hydrophobic
CL1CD2LEU- 933.950Hydrophobic
CL1CD1PHE- 1243.330Hydrophobic
C2CG2THR- 1714.450Hydrophobic
C3CBTHR- 1713.960Hydrophobic
C4CG2THR- 1714.130Hydrophobic
C5CD1LEU- 1733.730Hydrophobic