Logo scPDB

sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

Logo CNRS Logo Unistra
Protein Data Bank Entry:

2ga2

1.950 Å

X-ray

2006-03-07

Interactomes:
Molecular Function:
Binding Site :

Uniprot Annotation

Name:Methionine aminopeptidase 2
ID:MAP2_HUMAN
AC:P50579
Organism:Homo sapiens
Reign:Eukaryota
TaxID:9606
EC Number:/


Chains:

Chain Name:Percentage of Residues
within binding site
A100 %


Ligand binding site composition:

B-Factor:18.904
Number of residues:32
Including
Standard Amino Acids: 30
Non Standard Amino Acids: 2
Water Molecules: 0
Cofactors:
Metals: MN MN

Cavity properties

LigandabilityVolume (Å3)
0.951421.875

% Hydrophobic% Polar
57.6042.40
According to VolSite

Ligand :
2ga2_1 Structure
HET Code: A19
Formula: C13H8BrClNO4S
Molecular weight: 389.629 g/mol
DrugBank ID: DB07309
Buried Surface Area:65.49 %
Polar Surface area: 94.68 Å2
Number of
H-Bond Acceptors: 4
H-Bond Donors: 1
Rings: 2
Aromatic rings: 2
Anionic atoms: 1
Cationic atoms: 0
Rule of Five Violation: 0
Rotatable Bonds: 4

Mass center Coordinates

XYZ
16.899829.649218.2254


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
CL1CBALA- 2303.440Hydrophobic
O20NE2HIS- 2312.99167.48H-Bond
(Protein Donor)
CL1CD1LEU- 3283.70Hydrophobic
C2CD2LEU- 3283.680Hydrophobic
C13CG2ILE- 3383.740Hydrophobic
C17CG1ILE- 3383.90Hydrophobic
C13CBHIS- 3394.220Hydrophobic
CL1CZPHE- 3663.530Hydrophobic
C14CEMET- 3843.910Hydrophobic
BR18CBALA- 4143.80Hydrophobic
BR18CGTYR- 4443.890Hydrophobic
C3CD1LEU- 4473.850Hydrophobic
O21MN MN- 4812.450Metal Acceptor