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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:

4lr6

1.290 Å

X-ray

2013-07-19

Interactomes:
Molecular Function:
Binding Site :

Uniprot Annotation

Name:Bromodomain-containing protein 4
ID:BRD4_HUMAN
AC:O60885
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:21.850
Number of residues:15
Including
Standard Amino Acids: 14
Non Standard Amino Acids: 0
Water Molecules: 1
Cofactors:
Metals:

Cavity properties

LigandabilityVolume (Å3)
1.186371.250

% Hydrophobic% Polar
70.9129.09
According to VolSite

Ligand :
4lr6_1 Structure
HET Code: 1XA
Formula: C10H10N2O
Molecular weight: 174.199 g/mol
DrugBank ID: -
Buried Surface Area:56.14 %
Polar Surface area: 52.05 Å2
Number of
H-Bond Acceptors: 2
H-Bond Donors: 1
Rings: 2
Aromatic rings: 2
Anionic atoms: 0
Cationic atoms: 0
Rule of Five Violation: 0
Rotatable Bonds: 1

Mass center Coordinates

XYZ
-10.1959-6.180380.495538


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
CAGCBPRO- 824.090Hydrophobic
CALCBPRO- 823.890Hydrophobic
CAGCE1PHE- 834.130Hydrophobic
CAGCG2VAL- 873.880Hydrophobic
CALCD2LEU- 923.490Hydrophobic
CAMCD1LEU- 923.50Hydrophobic
OABND2ASN- 1402.96173.37H-Bond
(Protein Donor)
NAFOD1ASN- 1403.17129.11H-Bond
(Ligand Donor)
CAGCD1ILE- 1463.990Hydrophobic
CAICD1ILE- 1463.60Hydrophobic