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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:

2fhk

2.000 Å

X-ray

2005-12-25

Interactomes:
Molecular Function:
Binding Site :

Uniprot Annotation

Name:Formylmethanofuran--tetrahydromethanopterin formyltransferase
ID:FTR_METKA
AC:Q49610
Organism:Methanopyrus kandleri
Reign:Archaea
TaxID:190192
EC Number:2.3.1.101


Chains:

Chain Name:Percentage of Residues
within binding site
C40 %
D60 %


Ligand binding site composition:

B-Factor:19.363
Number of residues:30
Including
Standard Amino Acids: 30
Non Standard Amino Acids: 0
Water Molecules: 0
Cofactors:
Metals:

Cavity properties

LigandabilityVolume (Å3)
1.3531096.875

% Hydrophobic% Polar
53.5446.46
According to VolSite

Ligand :
2fhk_3 Structure
HET Code: MFN
Formula: C35H39N4O16
Molecular weight: 771.701 g/mol
DrugBank ID: -
Buried Surface Area:48.69 %
Polar Surface area: 339.41 Å2
Number of
H-Bond Acceptors: 15
H-Bond Donors: 4
Rings: 2
Aromatic rings: 2
Anionic atoms: 5
Cationic atoms: 0
Rule of Five Violation: 2
Rotatable Bonds: 27

Mass center Coordinates

XYZ
-16.135891.287550.1772


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
C8CG2ILE- 484.20Hydrophobic
C10CEMET- 493.460Hydrophobic
C13CEMET- 983.950Hydrophobic
C10CEMET- 983.560Hydrophobic
C17CBLYS- 1233.980Hydrophobic
N2OLYS- 1233.07149.72H-Bond
(Ligand Donor)
C11CD2LEU- 1244.130Hydrophobic
C13CE2PHE- 1273.560Hydrophobic
C6CBPHE- 1274.420Hydrophobic
C18CE1PHE- 2184.350Hydrophobic
C12CD2LEU- 2194.260Hydrophobic