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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:

1r31

2.100 Å

X-ray

2003-09-30

Interactomes:
Molecular Function:
Binding Site :

Uniprot Annotation

Name:3-hydroxy-3-methylglutaryl-coenzyme A reductase
ID:MVAA_PSEMV
AC:P13702
Organism:Pseudomonas mevalonii
Reign:Bacteria
TaxID:32044
EC Number:1.1.1.88


Chains:

Chain Name:Percentage of Residues
within binding site
A71 %
B29 %


Ligand binding site composition:

B-Factor:36.785
Number of residues:26
Including
Standard Amino Acids: 23
Non Standard Amino Acids: 1
Water Molecules: 2
Cofactors: COA
Metals:

Cavity properties

LigandabilityVolume (Å3)
0.523583.875

% Hydrophobic% Polar
43.9356.07
According to VolSite

Ligand :
1r31_1 Structure
HET Code: MEV
Formula: C6H11O4
Molecular weight: 147.149 g/mol
DrugBank ID: DB03518
Buried Surface Area:64.73 %
Polar Surface area: 80.59 Å2
Number of
H-Bond Acceptors: 4
H-Bond Donors: 2
Rings: 0
Aromatic rings: 0
Anionic atoms: 1
Cationic atoms: 0
Rule of Five Violation: 0
Rotatable Bonds: 4

Mass center Coordinates

XYZ
85.332125.627107.953


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
O3CZARG- 2613.540Ionic
(Protein Cationic)
O8NZLYS- 2672.84163.46H-Bond
(Protein Donor)
O8ND2ASN- 2713.15150.22H-Bond
(Protein Donor)
C4CBALA- 3683.940Hydrophobic
C6CBALA- 3684.070Hydrophobic
C6CD1ILE- 3773.510Hydrophobic
C6CD1ILE- 7134.460Hydrophobic
C2S1PCOA- 10023.450Hydrophobic
O4OHOH- 10142.7179.96H-Bond
(Protein Donor)