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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:

4l52

2.540 Å

X-ray

2013-06-10

Interactomes:
Molecular Function:
Binding Site :

Uniprot Annotation

Name:Mitogen-activated protein kinase kinase kinase 7
ID:M3K7_HUMAN
AC:O43318
Organism:Homo sapiens
Reign:Eukaryota
TaxID:9606
EC Number:2.7.11.25


Chains:

Chain Name:Percentage of Residues
within binding site
A100 %


Ligand binding site composition:

B-Factor:76.910
Number of residues:33
Including
Standard Amino Acids: 33
Non Standard Amino Acids: 0
Water Molecules: 0
Cofactors:
Metals:

Cavity properties

LigandabilityVolume (Å3)
1.263533.250

% Hydrophobic% Polar
59.4940.51
According to VolSite

Ligand :
4l52_1 Structure
HET Code: 1UL
Formula: C23H21N7O2S
Molecular weight: 459.524 g/mol
DrugBank ID: -
Buried Surface Area:55.1 %
Polar Surface area: 144.19 Å2
Number of
H-Bond Acceptors: 6
H-Bond Donors: 1
Rings: 6
Aromatic rings: 5
Anionic atoms: 0
Cationic atoms: 0
Rule of Five Violation: 0
Rotatable Bonds: 3

Mass center Coordinates

XYZ
-15.7116-49.5978-17.7982


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
C8CG2VAL- 424.020Hydrophobic
C20CG2VAL- 503.710Hydrophobic
N5OGLU- 1052.88168.4H-Bond
(Ligand Donor)
C4CZTYR- 1064.40Hydrophobic
C8CBALA- 1074.270Hydrophobic
N4NALA- 1072.87156.88H-Bond
(Protein Donor)
C9CD2LEU- 1633.850Hydrophobic
C15CD2LEU- 1634.250Hydrophobic
C18SGCYS- 1744.440Hydrophobic
C20SGCYS- 1743.620Hydrophobic
C18CBASP- 1754.20Hydrophobic