Logo scPDB

sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

Logo CNRS Logo Unistra
Protein Data Bank Entry:

1ho5

2.100 Å

X-ray

2000-12-08

Interactomes:
Molecular Function:
Binding Site :

Uniprot Annotation

Name:Protein UshA
ID:USHA_ECOLI
AC:P07024
Organism:Escherichia coli
Reign:Bacteria
TaxID:83333
EC Number:3.1.3.5


Chains:

Chain Name:Percentage of Residues
within binding site
B100 %


Ligand binding site composition:

B-Factor:54.363
Number of residues:29
Including
Standard Amino Acids: 29
Non Standard Amino Acids: 0
Water Molecules: 0
Cofactors:
Metals:

Cavity properties

LigandabilityVolume (Å3)
0.9411420.875

% Hydrophobic% Polar
34.6865.32
According to VolSite

Ligand :
1ho5_2 Structure
HET Code: ADN
Formula: C10H13N5O4
Molecular weight: 267.241 g/mol
DrugBank ID: DB00640
Buried Surface Area:65.37 %
Polar Surface area: 139.54 Å2
Number of
H-Bond Acceptors: 8
H-Bond Donors: 4
Rings: 3
Aromatic rings: 2
Anionic atoms: 0
Cationic atoms: 0
Rule of Five Violation: 0
Rotatable Bonds: 2

Mass center Coordinates

XYZ
7.9454712.69436.9879


Binding mode :
What is Poseview ?
  • 2D View
  • 3D View
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
C5'CD1ILE- 1784.190Hydrophobic
C3'CBILE- 1784.180Hydrophobic
O5'NH2ARG- 4103.11127.05H-Bond
(Protein Donor)
C1'CZPHE- 4294.120Hydrophobic
DuArDuArPHE- 4293.470Aromatic Face/Face
N1ND2ASN- 4313.24157.38H-Bond
(Protein Donor)
C2'CZPHE- 4983.810Hydrophobic
DuArDuArPHE- 4983.910Aromatic Face/Face