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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:

1eqa

2.200 Å

X-ray

1999-01-05

Interactomes:
Molecular Function:
Binding Site :

Uniprot Annotation

Name:Cap-specific mRNA (nucleoside-2'-O-)-methyltransferase
ID:MCE_VACCW
AC:P07617
Organism:Vaccinia virus )
Reign:Viruses
TaxID:10254
EC Number:2.1.1.57


Chains:

Chain Name:Percentage of Residues
within binding site
A100 %


Ligand binding site composition:

B-Factor:23.553
Number of residues:18
Including
Standard Amino Acids: 17
Non Standard Amino Acids: 0
Water Molecules: 1
Cofactors:
Metals:

Cavity properties

LigandabilityVolume (Å3)
0.835320.625

% Hydrophobic% Polar
60.0040.00
According to VolSite

Ligand :
1eqa_1 Structure
HET Code: MG7
Formula: C11H16N5O5
Molecular weight: 298.275 g/mol
DrugBank ID: DB03493
Buried Surface Area:37.51 %
Polar Surface area: 146.21 Å2
Number of
H-Bond Acceptors: 7
H-Bond Donors: 5
Rings: 3
Aromatic rings: 1
Anionic atoms: 0
Cationic atoms: 1
Rule of Five Violation: 0
Rotatable Bonds: 2

Mass center Coordinates

XYZ
16.525611.997122.8379


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
CN7CE1TYR- 224.130Hydrophobic
C4'CBALA- 274.220Hydrophobic
CN7CZPHE- 1804.320Hydrophobic
CN7CBALA- 2064.420Hydrophobic
N1NE2GLN- 2333.06159.26H-Bond
(Protein Donor)