scPDB - 1w0x entry

Protein Data Bank Entry:

PDB ID : 1w0x

Resolution :2.200 Å

Experimental Method : X-ray

Deposition Date : 2004-06-14

Activity from ChEMBL: What is pChEMBL ?

	Min	Mean	Median	Standard Deviation	Max	Count
pChEMBL:

List of CHEMBLId :

Binding Site :

Uniprot Annotation

Name:	Cyclin-dependent kinase 2
ID:	CDK2_HUMAN
AC:	P24941
Organism:	Homo sapiens
Reign:	Eukaryota
TaxID:	9606
EC Number:	2.7.11.22

Chains:

Chain Name:	Percentage of Residues within binding site
C	100 %

Ligand binding site composition:

B-Factor:	32.226
Number of residues:	25
Including
Standard Amino Acids:	25
Non Standard Amino Acids:	0
Water Molecules:	0
Cofactors:
Metals:

Cavity properties

Ligandability	Volume (Å3)
0.710	621.000

% Hydrophobic	% Polar
48.37	51.63
According to VolSite

Ligand :

HET Code:	OLO
Formula:	C15H18N6O
Molecular weight:	298.343 g/mol
DrugBank ID:	DB02116
Buried Surface Area:	57.5 %
Polar Surface area:	87.89 Å2

Number of
H-Bond Acceptors:	6
H-Bond Donors:	3
Rings:	3
Aromatic rings:	3
Anionic atoms:	0
Cationic atoms:	0
Rule of Five Violation:	0
Rotatable Bonds:	6

Mass center Coordinates

X	Y	Z
103.788	100.822	78.527

Binding mode :

What is Poseview ?

2D View
3D View

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

Ligand	Protein		Interaction
Atom	Atom	Residue	Distance (Å)	Angle (°)	Type
C9	CG2	ILE- 10	3.64	0	Hydrophobic	false
C8	CB	ILE- 10	3.68	0	Hydrophobic	false
C3	CB	ALA- 31	3.55	0	Hydrophobic	false
C3	CG1	VAL- 64	4.24	0	Hydrophobic	false
C3	CB	PHE- 80	3.86	0	Hydrophobic	false
N1	N	LEU- 83	2.96	160.8	H-Bond (Protein Donor)	false
N5	O	LEU- 83	2.66	137.12	H-Bond (Ligand Donor)	false
C5	CB	ASP- 86	4.15	0	Hydrophobic	false
C5	CG	GLN- 131	4.06	0	Hydrophobic	false
O	OE1	GLN- 131	2.97	159.15	H-Bond (Ligand Donor)	false
C3	CD1	LEU- 134	4.3	0	Hydrophobic	false
C4	CD2	LEU- 134	4.44	0	Hydrophobic	false
C6	CD2	LEU- 134	4.09	0	Hydrophobic	false