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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:

3wti

2.680 Å

X-ray

2014-04-11

Interactomes:
Molecular Function:
Binding Site :

Uniprot Annotation

Name:Acetylcholine-binding protein
ID:ACHP_LYMST
AC:P58154
Organism:Lymnaea stagnalis
Reign:Eukaryota
TaxID:6523
EC Number:/


Chains:

Chain Name:Percentage of Residues
within binding site
D50 %
E50 %


Ligand binding site composition:

B-Factor:37.744
Number of residues:23
Including
Standard Amino Acids: 22
Non Standard Amino Acids: 0
Water Molecules: 1
Cofactors:
Metals:

Cavity properties

LigandabilityVolume (Å3)
1.042617.625

% Hydrophobic% Polar
58.4741.53
According to VolSite

Ligand :
3wti_4 Structure
HET Code: CT4
Formula: C6H8ClN5O2S
Molecular weight: 249.678 g/mol
DrugBank ID: -
Buried Surface Area:73.76 %
Polar Surface area: 123.36 Å2
Number of
H-Bond Acceptors: 6
H-Bond Donors: 2
Rings: 1
Aromatic rings: 1
Anionic atoms: 1
Cationic atoms: 1
Rule of Five Violation: 0
Rotatable Bonds: 5

Mass center Coordinates

XYZ
53.594216.4796-30.0782


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
C3CZ3TRP- 533.260Hydrophobic
O1CZARG- 553.460Ionic
(Protein Cationic)
CLCBARG- 1043.610Hydrophobic
SCD2LEU- 1123.70Hydrophobic
CLCGLEU- 1123.70Hydrophobic
C3SDMET- 1144.470Hydrophobic
C3CH2TRP- 1433.990Hydrophobic
CLCG2THR- 1444.420Hydrophobic
C3CE2TYR- 1853.570Hydrophobic
N4OHOH- 4023142.24H-Bond
(Protein Donor)