Logo scPDB

sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

Logo CNRS Logo Unistra
Protein Data Bank Entry:

2hs0

2.520 Å

X-ray

2006-07-20

Interactomes:
Molecular Function:
Binding Site :

Uniprot Annotation

Name:Phosphoribosylformylglycinamidine synthase subunit PurL
ID:PURL_THEMA
AC:Q9X0X3
Organism:Thermotoga maritima
Reign:Bacteria
TaxID:243274
EC Number:/


Chains:

Chain Name:Percentage of Residues
within binding site
A100 %


Ligand binding site composition:

B-Factor:34.069
Number of residues:36
Including
Standard Amino Acids: 35
Non Standard Amino Acids: 1
Water Molecules: 0
Cofactors:
Metals: MG

Cavity properties

LigandabilityVolume (Å3)
1.0201380.375

% Hydrophobic% Polar
38.8861.12
According to VolSite

Ligand :
2hs0_2 Structure
HET Code: ATP
Formula: C10H12N5O13P3
Molecular weight: 503.149 g/mol
DrugBank ID: DB00171
Buried Surface Area:51.07 %
Polar Surface area: 319.88 Å2
Number of
H-Bond Acceptors: 17
H-Bond Donors: 3
Rings: 3
Aromatic rings: 2
Anionic atoms: 4
Cationic atoms: 0
Rule of Five Violation: 2
Rotatable Bonds: 8

Mass center Coordinates

XYZ
27.2163-29.4832132.275


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'CE1TYR- 354.170Hydrophobic
O1GNZLYS- 683.40Ionic
(Protein Cationic)
O1BNZLYS- 682.630Ionic
(Protein Cationic)
O1ANZLYS- 683.470Ionic
(Protein Cationic)
O1BNZLYS- 682.63128.07H-Bond
(Protein Donor)
O1ANZLYS- 683.47122.6H-Bond
(Protein Donor)
N6OD1ASN- 4422.79128.47H-Bond
(Ligand Donor)
N1ND2ASN- 4422.84152.25H-Bond
(Protein Donor)
O2'NGLY- 4773.18154.6H-Bond
(Protein Donor)
N6OASN- 4783.07134.69H-Bond
(Ligand Donor)