scPDB - 3h59 entry

Protein Data Bank Entry:

PDB ID : 3h59

Resolution :2.100 Å

Experimental Method : X-ray

Deposition Date : 2009-04-21

Activity from ChEMBL: What is pChEMBL ?

	Min	Mean	Median	Standard Deviation	Max	Count
pChEMBL:

List of CHEMBLId :

Binding Site :

Uniprot Annotation

Name:	Genome polyprotein
ID:	POLG_HCVBK
AC:	P26663
Organism:	Hepatitis C virus genotype 1b
Reign:	Viruses
TaxID:	11105
EC Number:	2.7.7.48

Chains:

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

Ligand binding site composition:

B-Factor:	18.497
Number of residues:	48
Including
Standard Amino Acids:	44
Non Standard Amino Acids:	0
Water Molecules:	4
Cofactors:
Metals:

Cavity properties

Ligandability	Volume (Å3)
1.059	1015.875

% Hydrophobic	% Polar
37.54	62.46
According to VolSite

Ligand :

HET Code:	H59
Formula:	C26H29FN3O6S2
Molecular weight:	562.653 g/mol
DrugBank ID:	-
Buried Surface Area:	62.13 %
Polar Surface area:	152.46 Å2

Number of
H-Bond Acceptors:	7
H-Bond Donors:	2
Rings:	4
Aromatic rings:	2
Anionic atoms:	1
Cationic atoms:	0
Rule of Five Violation:	1
Rotatable Bonds:	7

Mass center Coordinates

X	Y	Z
-9.98368	-8.26782	12.1982

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
F32	CB	PRO- 197	3.76	0	Hydrophobic	false
C33	CB	PRO- 197	3.77	0	Hydrophobic	false
F32	CD	ARG- 200	3.44	0	Hydrophobic	false
C26	CG2	THR- 287	4.44	0	Hydrophobic	false
O27	ND2	ASN- 291	2.78	171.11	H-Bond (Protein Donor)	false
C14	CB	ASN- 316	4.32	0	Hydrophobic	false
N24	OD1	ASP- 318	2.65	163.65	H-Bond (Ligand Donor)	false
O27	N	ASP- 318	3.31	145.02	H-Bond (Protein Donor)	false
C15	CB	ASP- 319	4.08	0	Hydrophobic	false
C14	SG	CYS- 366	4.25	0	Hydrophobic	false
C6	CB	CYS- 366	3.88	0	Hydrophobic	false
C33	CB	LEU- 384	4.01	0	Hydrophobic	false
F32	CD1	LEU- 384	3.76	0	Hydrophobic	false
C37	CB	MET- 414	4.15	0	Hydrophobic	false
C5	CE	MET- 414	3.69	0	Hydrophobic	false
C4	CE	MET- 414	3.48	0	Hydrophobic	false
C36	CG	MET- 414	4.09	0	Hydrophobic	false
C3	CE	MET- 414	3.64	0	Hydrophobic	false
C33	CE1	TYR- 415	4.01	0	Hydrophobic	false
C37	CE2	TYR- 415	3.87	0	Hydrophobic	false
O29	N	TYR- 448	2.71	153.66	H-Bond (Protein Donor)	false
C17	CB	SER- 556	4.04	0	Hydrophobic	false
C26	CB	SER- 556	3.83	0	Hydrophobic	false
O29	O	HOH- 626	2.61	147.67	H-Bond (Protein Donor)	false