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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:

1bnt

2.150 Å

X-ray

1998-07-30

Interactomes:
Molecular Function:
Binding Site :

Uniprot Annotation

Name:Carbonic anhydrase 2
ID:CAH2_HUMAN
AC:P00918
Organism:Homo sapiens
Reign:Eukaryota
TaxID:9606
EC Number:4.2.1.1


Chains:

Chain Name:Percentage of Residues
within binding site
A100 %


Ligand binding site composition:

B-Factor:7.249
Number of residues:28
Including
Standard Amino Acids: 27
Non Standard Amino Acids: 1
Water Molecules: 0
Cofactors:
Metals: ZN

Cavity properties

LigandabilityVolume (Å3)
0.411347.625

% Hydrophobic% Polar
47.5752.43
According to VolSite

Ligand :
1bnt_1 Structure
HET Code: AL2
Formula: C13H14N2O6S3
Molecular weight: 390.455 g/mol
DrugBank ID: DB01964
Buried Surface Area:52.04 %
Polar Surface area: 172 Å2
Number of
H-Bond Acceptors: 6
H-Bond Donors: 2
Rings: 3
Aromatic rings: 2
Anionic atoms: 0
Cationic atoms: 0
Rule of Five Violation: 0
Rotatable Bonds: 3

Mass center Coordinates

XYZ
-3.877925.2930414.6262


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
O3BNE2GLN- 922.88133.66H-Bond
(Protein Donor)
S2CG2VAL- 1213.780Hydrophobic
C15CG1VAL- 1354.210Hydrophobic
C16CD1LEU- 1983.730Hydrophobic
S2CD2LEU- 1983.610Hydrophobic
O1ANTHR- 1992.95143.93H-Bond
(Protein Donor)
N21OG1THR- 1992.83169.77H-Bond
(Ligand Donor)
O5OG1THR- 2002.84153.21H-Bond
(Ligand Donor)
C15CGPRO- 2024.330Hydrophobic
N21ZN ZN- 2621.950Metal Acceptor