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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:

2xvv

2.400 Å

X-ray

2010-10-28

Interactomes:
Molecular Function:
Binding Site :

Uniprot Annotation

Name:Serum albumin
ID:ALBU_HUMAN
AC:P02768
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:49.462
Number of residues:21
Including
Standard Amino Acids: 21
Non Standard Amino Acids: 0
Water Molecules: 0
Cofactors:
Metals:

Cavity properties

LigandabilityVolume (Å3)
1.507874.125

% Hydrophobic% Polar
65.2534.75
According to VolSite

Ligand :
2xvv_2 Structure
HET Code: 9DN
Formula: C16H18N3O5S
Molecular weight: 364.396 g/mol
DrugBank ID: -
Buried Surface Area:45.34 %
Polar Surface area: 141.01 Å2
Number of
H-Bond Acceptors: 6
H-Bond Donors: 2
Rings: 2
Aromatic rings: 2
Anionic atoms: 1
Cationic atoms: 0
Rule of Five Violation: 0
Rotatable Bonds: 7

Mass center Coordinates

XYZ
29.11118.8761630.7049


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
C12CG2ILE- 1423.870Hydrophobic
C8CD1ILE- 1424.080Hydrophobic
C12CZPHE- 1494.010Hydrophobic
C12CD1LEU- 1543.510Hydrophobic
C11CD1PHE- 1573.280Hydrophobic
C12CD2PHE- 1574.490Hydrophobic
C11CE2TYR- 1614.360Hydrophobic
C7CGARG- 1863.760Hydrophobic
OXTNZLYS- 1903.690Ionic
(Protein Cationic)
C2CGLYS- 19040Hydrophobic