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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:

2fj1

2.200 Å

X-ray

2005-12-30

Interactomes:
Molecular Function:
Binding Site :

Uniprot Annotation

Name:Tetracycline repressor protein class D
ID:TETR4_ECOLX
AC:P0ACT4
Organism:Escherichia coli
Reign:Bacteria
TaxID:562
EC Number:/


Chains:

Chain Name:Percentage of Residues
within binding site
A100 %


Ligand binding site composition:

B-Factor:26.565
Number of residues:29
Including
Standard Amino Acids: 29
Non Standard Amino Acids: 0
Water Molecules: 0
Cofactors:
Metals:

Cavity properties

LigandabilityVolume (Å3)
1.226600.750

% Hydrophobic% Polar
44.3855.62
According to VolSite

Ligand :
2fj1_1 Structure
HET Code: CTC
Formula: C22H21ClN2O8
Molecular weight: 476.864 g/mol
DrugBank ID: DB09093
Buried Surface Area:54.63 %
Polar Surface area: 191.3 Å2
Number of
H-Bond Acceptors: 8
H-Bond Donors: 4
Rings: 4
Aromatic rings: 1
Anionic atoms: 3
Cationic atoms: 1
Rule of Five Violation: 0
Rotatable Bonds: 2

Mass center Coordinates

XYZ
21.259836.739534.8719


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
O3NE2HIS- 642.84171.66H-Bond
(Protein Donor)
O3ND2ASN- 822.75158.07H-Bond
(Protein Donor)
N4OD1ASN- 822.6141.07H-Bond
(Ligand Donor)
C9CDARG- 1043.580Hydrophobic
C6ACGPRO- 1053.810Hydrophobic
C6BCGPRO- 1053.960Hydrophobic
C5CG2VAL- 1134.450Hydrophobic
CL7CG1VAL- 1134.50Hydrophobic
O3NE2GLN- 1162.99155.42H-Bond
(Protein Donor)
CL7CD1LEU- 1174.240Hydrophobic
C6'CD1LEU- 1314.490Hydrophobic
CL7CD1LEU- 1313.850Hydrophobic
C5CG2ILE- 1344.220Hydrophobic
C6'CG2ILE- 1343.410Hydrophobic