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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:

4iom

3.000 Å

X-ray

2013-01-08

Interactomes:
Molecular Function:
Binding Site :

Uniprot Annotation

Name:Formate--tetrahydrofolate ligase
ID:FTHS_MOOTA
AC:Q2RM91
Organism:Moorella thermoacetica
Reign:Bacteria
TaxID:264732
EC Number:/


Chains:

Chain Name:Percentage of Residues
within binding site
A100 %


Ligand binding site composition:

B-Factor:26.616
Number of residues:18
Including
Standard Amino Acids: 18
Non Standard Amino Acids: 0
Water Molecules: 0
Cofactors:
Metals:

Cavity properties

LigandabilityVolume (Å3)
0.703384.750

% Hydrophobic% Polar
52.6347.37
According to VolSite

Ligand :
4iom_1 Structure
HET Code: FOL
Formula: C19H17N7O6
Molecular weight: 439.382 g/mol
DrugBank ID: DB00158
Buried Surface Area:37.18 %
Polar Surface area: 214.64 Å2
Number of
H-Bond Acceptors: 12
H-Bond Donors: 4
Rings: 3
Aromatic rings: 2
Anionic atoms: 2
Cationic atoms: 0
Rule of Five Violation: 1
Rotatable Bonds: 9

Mass center Coordinates

XYZ
6.438918.3050375.9625


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
C11CBALA- 3834.190Hydrophobic
C14CBALA- 3834.420Hydrophobic
C9CGPRO- 3853.430Hydrophobic
C14CGPRO- 3854.140Hydrophobic
C15CBPRO- 3853.940Hydrophobic
CGCD1LEU- 3923.360Hydrophobic
OE2OHTYR- 3963.03163.23H-Bond
(Protein Donor)
CBCD2LEU- 4083.780Hydrophobic
DuArDuArTRP- 4123.960Aromatic Face/Face