scPDB - 2qzl entry

Protein Data Bank Entry:

PDB ID : 2qzl

Resolution :1.800 Å

Experimental Method : X-ray

Deposition Date : 2007-08-16

Activity from ChEMBL: What is pChEMBL ?

	Min	Mean	Median	Standard Deviation	Max	Count
pChEMBL:

List of CHEMBLId :

Binding Site :

Uniprot Annotation

Name:	Beta-secretase 1
ID:	BACE1_HUMAN
AC:	P56817
Organism:	Homo sapiens
Reign:	Eukaryota
TaxID:	9606
EC Number:	3.4.23.46

Chains:

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

Ligand binding site composition:

B-Factor:	15.584
Number of residues:	56
Including
Standard Amino Acids:	50
Non Standard Amino Acids:	0
Water Molecules:	6
Cofactors:
Metals:

Cavity properties

Ligandability	Volume (Å3)
0.808	695.250

% Hydrophobic	% Polar
30.10	69.90
According to VolSite

Ligand :

HET Code:	IXS
Formula:	C34H45FN5O5S
Molecular weight:	654.815 g/mol
DrugBank ID:	-
Buried Surface Area:	70.93 %
Polar Surface area:	149.66 Å2

Number of
H-Bond Acceptors:	5
H-Bond Donors:	4
Rings:	3
Aromatic rings:	3
Anionic atoms:	0
Cationic atoms:	1
Rule of Five Violation:	1
Rotatable Bonds:	15

Mass center Coordinates

X	Y	Z
30.7432	41.1105	2.41983

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
F1	CD1	TYR- 14	3.55	0	Hydrophobic	false
C50	CD1	LEU- 30	4.03	0	Hydrophobic	false
C61	CD2	LEU- 30	3.28	0	Hydrophobic	false
N9	O	GLY- 34	2.97	159.21	H-Bond (Ligand Donor)	false
C51	CB	SER- 35	3.94	0	Hydrophobic	false
C53	CG1	VAL- 69	3.85	0	Hydrophobic	false
C56	CD1	TYR- 71	3.58	0	Hydrophobic	false
C65	CB	TYR- 71	3.85	0	Hydrophobic	false
C51	CD1	TYR- 71	4.42	0	Hydrophobic	false
C29	CG2	THR- 72	3.88	0	Hydrophobic	false
C18	CB	THR- 72	4.49	0	Hydrophobic	false
O3	N	THR- 72	3.06	155.27	H-Bond (Protein Donor)	false
O5	NE2	GLN- 73	3.1	137.32	H-Bond (Protein Donor)	false
O4	N	GLN- 73	3.18	141.7	H-Bond (Protein Donor)	false
C17	CB	GLN- 73	3.76	0	Hydrophobic	false
C50	CD1	ILE- 110	3.75	0	Hydrophobic	false
C50	CZ2	TRP- 115	4	0	Hydrophobic	false
C61	CD1	ILE- 118	3.71	0	Hydrophobic	false
C52	CD1	ILE- 126	3.82	0	Hydrophobic	false
C8	CE1	TYR- 198	4.18	0	Hydrophobic	false
C52	CZ	TYR- 198	4.01	0	Hydrophobic	false
C8	CD1	ILE- 226	3.89	0	Hydrophobic	false
N38	OD2	ASP- 228	2.73	161.66	H-Bond (Ligand Donor)	false
N38	OD2	ASP- 228	2.73	0	Ionic (Ligand Cationic)	false
N38	OD1	ASP- 228	3.77	0	Ionic (Ligand Cationic)	false
N13	O	GLY- 230	3	171.12	H-Bond (Ligand Donor)	false
N35	O	GLY- 230	3.14	162.01	H-Bond (Ligand Donor)	false
C17	CB	THR- 231	4.2	0	Hydrophobic	false
C18	CG2	THR- 231	3.97	0	Hydrophobic	false
C20	CB	THR- 232	4.45	0	Hydrophobic	false
C4	CB	THR- 232	4.3	0	Hydrophobic	false
C3	CG2	THR- 232	4.09	0	Hydrophobic	false
O2	N	ASN- 233	3.05	149.67	H-Bond (Protein Donor)	false
C29	CD	ARG- 235	4.05	0	Hydrophobic	false
C2	CB	ALA- 335	3.78	0	Hydrophobic	false