scPDB - 2bfq entry

Protein Data Bank Entry:

PDB ID : 2bfq

Resolution :1.500 Å

Experimental Method : X-ray

Deposition Date : 2004-12-10

Activity from ChEMBL: What is pChEMBL ?

	Min	Mean	Median	Standard Deviation	Max	Count
pChEMBL:

List of CHEMBLId :

Binding Site :

Uniprot Annotation

Name:	[Protein ADP-ribosylglutamate] hydrolase AF_1521
ID:	Y1521_ARCFU
AC:	O28751
Organism:	Archaeoglobus fulgidus
Reign:	Archaea
TaxID:	224325
EC Number:	3.2.2

Chains:

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

Ligand binding site composition:

B-Factor:	19.549
Number of residues:	45
Including
Standard Amino Acids:	40
Non Standard Amino Acids:	0
Water Molecules:	5
Cofactors:
Metals:

Cavity properties

Ligandability	Volume (Å3)
0.901	499.500

% Hydrophobic	% Polar
50.00	50.00
According to VolSite

Ligand :

HET Code:	AR6
Formula:	C15H21N5O14P2
Molecular weight:	557.300 g/mol
DrugBank ID:	DB02059
Buried Surface Area:	70.2 %
Polar Surface area:	316.8 Å2

Number of
H-Bond Acceptors:	18
H-Bond Donors:	6
Rings:	4
Aromatic rings:	2
Anionic atoms:	2
Cationic atoms:	0
Rule of Five Violation:	3
Rotatable Bonds:	9

Mass center Coordinates

X	Y	Z
-16.3397	22.5001	4.12569

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
N6	OD2	ASP- 20	2.95	170.23	H-Bond (Ligand Donor)	false
N1	N	ILE- 21	3	179.15	H-Bond (Protein Donor)	false
O3D	ND2	ASN- 34	2.89	163.77	H-Bond (Protein Donor)	false
C3D	CB	ASN- 34	3.73	0	Hydrophobic	false
O1D	N	GLY- 41	3.21	123.92	H-Bond (Protein Donor)	false
O1A	N	VAL- 43	2.8	159.01	H-Bond (Protein Donor)	false
C2D	CB	ALA- 44	3.82	0	Hydrophobic	false
C4'	CB	ALA- 139	4.32	0	Hydrophobic	false
O2B	N	SER- 141	2.85	138.97	H-Bond (Protein Donor)	false
O1B	N	GLY- 143	2.83	131.22	H-Bond (Protein Donor)	false
O2A	N	ILE- 144	2.91	166.19	H-Bond (Protein Donor)	false
C5D	CG1	ILE- 144	4.37	0	Hydrophobic	false
C1D	CD1	ILE- 144	4.18	0	Hydrophobic	false
C4D	CD1	ILE- 144	3.77	0	Hydrophobic	false
O1B	N	TYR- 145	2.96	164.46	H-Bond (Protein Donor)	false
C5D	CE2	TYR- 145	3.79	0	Hydrophobic	false
C3D	CZ	TYR- 145	4.18	0	Hydrophobic	false
C4D	CE1	TYR- 145	3.67	0	Hydrophobic	false
C1'	CB	TYR- 176	4.07	0	Hydrophobic	false
O2B	O	HOH- 2029	2.96	179.94	H-Bond (Protein Donor)	false
O3D	O	HOH- 2034	3.19	179.97	H-Bond (Protein Donor)	false
N3	O	HOH- 2137	2.96	179.97	H-Bond (Protein Donor)	false
O1A	O	HOH- 2147	2.68	152.27	H-Bond (Protein Donor)	false
O2D	O	HOH- 2148	2.85	157.1	H-Bond (Ligand Donor)	false