scPDB - 4jsr entry

Protein Data Bank Entry:

PDB ID : 4jsr

Resolution :1.700 Å

Experimental Method : X-ray

Deposition Date : 2013-03-22

Activity from ChEMBL: What is pChEMBL ?

	Min	Mean	Median	Standard Deviation	Max	Count
pChEMBL:

List of CHEMBLId :

Binding Site :

Uniprot Annotation

Name:	NAD-dependent protein deacetylase sirtuin-3, mitochondrial
ID:	SIR3_HUMAN
AC:	Q9NTG7
Organism:	Homo sapiens
Reign:	Eukaryota
TaxID:	9606
EC Number:	3.5.1

Chains:

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

Ligand binding site composition:

B-Factor:	22.396
Number of residues:	37
Including
Standard Amino Acids:	33
Non Standard Amino Acids:	0
Water Molecules:	4
Cofactors:
Metals:

Cavity properties

Ligandability	Volume (Å3)
0.650	961.875

% Hydrophobic	% Polar
42.46	57.54
According to VolSite

Ligand :

HET Code:	1NQ
Formula:	C22H26N6O3S2
Molecular weight:	486.610 g/mol
DrugBank ID:	-
Buried Surface Area:	61.44 %
Polar Surface area:	186.79 Å2

Number of
H-Bond Acceptors:	6
H-Bond Donors:	3
Rings:	4
Aromatic rings:	3
Anionic atoms:	0
Cationic atoms:	0
Rule of Five Violation:	0
Rotatable Bonds:	8

Mass center Coordinates

X	Y	Z
23.1635	45.473	-1.49239

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
CAM	CE2	PHE- 157	4.27	0	Hydrophobic	false
CAO	CD2	PHE- 157	4.1	0	Hydrophobic	false
SAV	CZ	PHE- 157	3.61	0	Hydrophobic	false
CAN	CE2	PHE- 157	4.44	0	Hydrophobic	false
N3	N	PHE- 157	3.05	172.38	H-Bond (Protein Donor)	false
DuAr	DuAr	PHE- 157	3.68	0	Aromatic Face/Face	false
CAL	CD2	PHE- 180	4.2	0	Hydrophobic	false
CAM	CE2	PHE- 180	3.85	0	Hydrophobic	false
CAN	CG2	ILE- 230	3.83	0	Hydrophobic	false
SAV	CG1	ILE- 230	4.09	0	Hydrophobic	false
OAC	N	ILE- 230	2.92	130.53	H-Bond (Protein Donor)	false
OAC	N	ASP- 231	3.01	124.05	H-Bond (Protein Donor)	false
NAB	OD2	ASP- 231	3.09	141.33	H-Bond (Ligand Donor)	false
CAN	CB	HIS- 248	3.89	0	Hydrophobic	false
CAL	CG2	ILE- 291	4.48	0	Hydrophobic	false
NAT	O	VAL- 292	2.99	148.44	H-Bond (Ligand Donor)	false
NAS	O	GLU- 296	2.94	152.93	H-Bond (Ligand Donor)	false
NAB	O	HOH- 531	2.81	149.1	H-Bond (Ligand Donor)	false