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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:

4uya

2.800 Å

X-ray

2014-08-29

Interactomes:
Molecular Function:
Binding Site :

Uniprot Annotation

Name:Mitogen-activated protein kinase kinase kinase 21
ID:M3KL4_HUMAN
AC:Q5TCX8
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:72.868
Number of residues:28
Including
Standard Amino Acids: 26
Non Standard Amino Acids: 2
Water Molecules: 0
Cofactors:
Metals: MG MG

Cavity properties

LigandabilityVolume (Å3)
1.571810.000

% Hydrophobic% Polar
58.3341.67
According to VolSite

Ligand :
4uya_1 Structure
HET Code: AGS
Formula: C10H14N5O12P3S
Molecular weight: 521.231 g/mol
DrugBank ID: DB02930
Buried Surface Area:47.51 %
Polar Surface area: 329.24 Å2
Number of
H-Bond Acceptors: 17
H-Bond Donors: 5
Rings: 3
Aromatic rings: 2
Anionic atoms: 2
Cationic atoms: 0
Rule of Five Violation: 2
Rotatable Bonds: 8

Mass center Coordinates

XYZ
25.4183-5.4531914.3361


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
C1'CG1VAL- 1384.080Hydrophobic
N6OGLU- 2013.14152.22H-Bond
(Ligand Donor)
N1NALA- 2033.18167.55H-Bond
(Protein Donor)
C2'CD2LEU- 2703.650Hydrophobic
O2AMG MG- 14392.750Metal Acceptor
O3GMG MG- 14402.260Metal Acceptor