scPDB - 3qow entry

Protein Data Bank Entry:

PDB ID : 3qow

Resolution :2.100 Å

Experimental Method : X-ray

Deposition Date : 2011-02-11

Activity from ChEMBL: What is pChEMBL ?

	Min	Mean	Median	Standard Deviation	Max	Count
pChEMBL:

List of CHEMBLId :

Binding Site :

Uniprot Annotation

Name:	Histone-lysine N-methyltransferase, H3 lysine-79 specific
ID:	DOT1L_HUMAN
AC:	Q8TEK3
Organism:	Homo sapiens
Reign:	Eukaryota
TaxID:	9606
EC Number:	2.1.1.43

Chains:

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

Ligand binding site composition:

B-Factor:	33.244
Number of residues:	40
Including
Standard Amino Acids:	37
Non Standard Amino Acids:	0
Water Molecules:	3
Cofactors:
Metals:

Cavity properties

Ligandability	Volume (Å3)
0.920	489.375

% Hydrophobic	% Polar
55.17	44.83
According to VolSite

Ligand :

HET Code:	SAM
Formula:	C15H23N6O5S
Molecular weight:	399.445 g/mol
DrugBank ID:	DB00118
Buried Surface Area:	77.76 %
Polar Surface area:	189.77 Å2

Number of
H-Bond Acceptors:	9
H-Bond Donors:	4
Rings:	3
Aromatic rings:	2
Anionic atoms:	1
Cationic atoms:	2
Rule of Five Violation:	1
Rotatable Bonds:	7

Mass center Coordinates

X	Y	Z
21.0614	63.0606	-7.94281

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
O	OG1	THR- 139	2.67	173.04	H-Bond (Protein Donor)	false
OXT	N	THR- 139	2.83	162	H-Bond (Protein Donor)	false
N	OD1	ASP- 161	3.18	0	Ionic (Ligand Cationic)	false
N	OD2	ASP- 161	2.87	0	Ionic (Ligand Cationic)	false
N	OD2	ASP- 161	2.87	163.12	H-Bond (Ligand Donor)	false
N	O	GLY- 163	2.74	173.45	H-Bond (Ligand Donor)	false
OXT	NE2	GLN- 168	3	148.3	H-Bond (Protein Donor)	false
O3'	OE1	GLU- 186	2.86	169.28	H-Bond (Ligand Donor)	false
O3'	OE2	GLU- 186	3.33	133.54	H-Bond (Ligand Donor)	false
O2'	OE2	GLU- 186	2.51	154.68	H-Bond (Ligand Donor)	false
N3	N	LYS- 187	3.37	139.47	H-Bond (Protein Donor)	false
N6	OD1	ASP- 222	2.88	161.53	H-Bond (Ligand Donor)	false
N1	N	PHE- 223	3.05	164.21	H-Bond (Protein Donor)	false
DuAr	DuAr	PHE- 223	3.78	0	Aromatic Face/Face	false
O	ND2	ASN- 241	3.31	154.03	H-Bond (Protein Donor)	false
CG	CB	ASN- 241	3.76	0	Hydrophobic	false
CE	CB	ASN- 241	4.35	0	Hydrophobic	false
C1'	CE1	PHE- 245	4.38	0	Hydrophobic	false
C5'	CE1	PHE- 245	4.03	0	Hydrophobic	false