scPDB - 4fyn entry

Protein Data Bank Entry:

PDB ID : 4fyn

Resolution :2.320 Å

Experimental Method : X-ray

Deposition Date : 2012-07-05

Activity from ChEMBL: What is pChEMBL ?

	Min	Mean	Median	Standard Deviation	Max	Count
pChEMBL:

List of CHEMBLId :

Binding Site :

Uniprot Annotation

Name:	Tyrosine-protein kinase SYK
ID:	KSYK_HUMAN
AC:	P43405
Organism:	Homo sapiens
Reign:	Eukaryota
TaxID:	9606
EC Number:	2.7.10.2

Chains:

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

Ligand binding site composition:

B-Factor:	55.524
Number of residues:	31
Including
Standard Amino Acids:	30
Non Standard Amino Acids:	0
Water Molecules:	1
Cofactors:
Metals:

Cavity properties

Ligandability	Volume (Å3)
1.205	691.875

% Hydrophobic	% Polar
51.22	48.78
According to VolSite

Ligand :

HET Code:	0VE
Formula:	C22H23N5O2
Molecular weight:	389.450 g/mol
DrugBank ID:	-
Buried Surface Area:	47.86 %
Polar Surface area:	85.92 Å2

Number of
H-Bond Acceptors:	6
H-Bond Donors:	3
Rings:	4
Aromatic rings:	4
Anionic atoms:	0
Cationic atoms:	0
Rule of Five Violation:	0
Rotatable Bonds:	7

Mass center Coordinates

X	Y	Z
1.51669	-0.434	14.3377

Binding mode :

What is Poseview ?

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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
C29	CD2	LEU- 377	4.14	0	Hydrophobic	false
C15	CD1	LEU- 377	3.99	0	Hydrophobic	false
C12	CD2	LEU- 377	4.12	0	Hydrophobic	false
C22	CG2	VAL- 385	3.75	0	Hydrophobic	false
C24	CG	LYS- 402	3.92	0	Hydrophobic	false
C27	CD	LYS- 402	4.29	0	Hydrophobic	false
C18	SD	MET- 448	3.46	0	Hydrophobic	false
C24	CE	MET- 448	3.68	0	Hydrophobic	false
C20	SD	MET- 450	4.27	0	Hydrophobic	false
N7	N	ALA- 451	2.9	165.05	H-Bond (Protein Donor)	false
N9	O	ALA- 451	3.01	133.92	H-Bond (Ligand Donor)	false
C13	CD1	LEU- 501	4.39	0	Hydrophobic	false
C13	CB	SER- 511	4.21	0	Hydrophobic	false
O21	N	ASP- 512	3.22	150.34	H-Bond (Protein Donor)	false
O21	O	HOH- 1010	2.67	143.32	H-Bond (Ligand Donor)	false