scPDB - 2yj5 entry

Protein Data Bank Entry:

PDB ID : 2yj5

Resolution :2.400 Å

Experimental Method : X-ray

Deposition Date : 2011-05-18

Activity from ChEMBL: What is pChEMBL ?

	Min	Mean	Median	Standard Deviation	Max	Count
pChEMBL:

List of CHEMBLId :

Binding Site :

Uniprot Annotation

Name:	Copper-transporting ATPase
ID:	Q97UU7_SULSO
AC:	Q97UU7
Organism:	Sulfolobus solfataricus
Reign:	Archaea
TaxID:	273057
EC Number:	/

Chains:

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

Ligand binding site composition:

B-Factor:	46.766
Number of residues:	36
Including
Standard Amino Acids:	36
Non Standard Amino Acids:	0
Water Molecules:	0
Cofactors:
Metals:

Cavity properties

Ligandability	Volume (Å3)
0.423	475.875

% Hydrophobic	% Polar
46.10	53.90
According to VolSite

Ligand :

HET Code:	A99
Formula:	C18H20N6O15P3
Molecular weight:	653.304 g/mol
DrugBank ID:	-
Buried Surface Area:	46.16 %
Polar Surface area:	351.87 Å2

Number of
H-Bond Acceptors:	19
H-Bond Donors:	3
Rings:	4
Aromatic rings:	3
Anionic atoms:	4
Cationic atoms:	1
Rule of Five Violation:	2
Rotatable Bonds:	12

Mass center Coordinates

X	Y	Z
30.755	-7.51602	-33.1065

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
C3'	CG	PRO- 426	4.01	0	Hydrophobic	false
C4'	CB	PRO- 426	3.67	0	Hydrophobic	false
N1	OE1	GLU- 445	3.48	144.69	H-Bond (Ligand Donor)	false
N1	OE2	GLU- 445	2.63	159.08	H-Bond (Ligand Donor)	false
N6	OE1	GLU- 445	3.2	159.64	H-Bond (Ligand Donor)	false
O2A	NE2	HIS- 450	3.46	135.12	H-Bond (Protein Donor)	false
C2B	CD1	ILE- 452	4.04	0	Hydrophobic	false
C4B	CG	LYS- 494	3.93	0	Hydrophobic	false
C1B	CG	LYS- 494	3.34	0	Hydrophobic	false
C2B	CD1	ILE- 501	3.78	0	Hydrophobic	false
C5'	CG2	ILE- 515	4.1	0	Hydrophobic	false
C6'	CB	ASP- 517	3.77	0	Hydrophobic	false