scPDB - 2x0q entry

Protein Data Bank Entry:

PDB ID : 2x0q

Resolution :1.960 Å

Experimental Method : X-ray

Deposition Date : 2009-12-16

Activity from ChEMBL: What is pChEMBL ?

	Min	Mean	Median	Standard Deviation	Max	Count
pChEMBL:

List of CHEMBLId :

Binding Site :

Uniprot Annotation

Name:	Alcaligin biosynthesis protein
ID:	Q7W557_BORPA
AC:	Q7W557
Organism:	Bordetella parapertussis
Reign:	Bacteria
TaxID:	257311
EC Number:	/

Chains:

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

Ligand binding site composition:

B-Factor:	17.652
Number of residues:	45
Including
Standard Amino Acids:	36
Non Standard Amino Acids:	2
Water Molecules:	7
Cofactors:
Metals:	MG MG

Cavity properties

Ligandability	Volume (Å3)
0.102	448.875

% Hydrophobic	% Polar
44.36	55.64
According to VolSite

Ligand :

HET Code:	ATP
Formula:	C10H12N5O13P3
Molecular weight:	503.149 g/mol
DrugBank ID:	DB00171
Buried Surface Area:	73.7 %
Polar Surface area:	319.88 Å2

Number of
H-Bond Acceptors:	17
H-Bond Donors:	3
Rings:	3
Aromatic rings:	2
Anionic atoms:	4
Cationic atoms:	0
Rule of Five Violation:	2
Rotatable Bonds:	8

Mass center Coordinates

X	Y	Z
30.6525	12.8019	11.1052

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
O2G	OG	SER- 284	2.86	163.88	H-Bond (Protein Donor)	false
O3B	OG	SER- 284	3.47	124.67	H-Bond (Protein Donor)	false
C4'	CB	SER- 284	4.08	0	Hydrophobic	false
O1B	NE	ARG- 286	2.86	136.65	H-Bond (Protein Donor)	false
O1B	NH1	ARG- 286	2.72	141.69	H-Bond (Protein Donor)	false
O2B	NH1	ARG- 286	2.78	130.17	H-Bond (Protein Donor)	false
O1B	CZ	ARG- 286	3.18	0	Ionic (Protein Cationic)	false
O2B	CZ	ARG- 286	3.72	0	Ionic (Protein Cationic)	false
O2G	OG1	THR- 287	2.77	162.2	H-Bond (Protein Donor)	false
O3G	NZ	LYS- 300	2.73	133.34	H-Bond (Protein Donor)	false
O2B	NZ	LYS- 300	2.68	167.47	H-Bond (Protein Donor)	false
O3G	NZ	LYS- 300	2.73	0	Ionic (Protein Cationic)	false
O2B	NZ	LYS- 300	2.68	0	Ionic (Protein Cationic)	false
O3'	ND2	ASN- 307	2.88	146.21	H-Bond (Protein Donor)	false
C3'	CE	MET- 308	4.15	0	Hydrophobic	false
C2'	SD	MET- 308	3.73	0	Hydrophobic	false
O2A	NH2	ARG- 312	3.31	129.67	H-Bond (Protein Donor)	false
O5'	NH2	ARG- 312	3.22	125.18	H-Bond (Protein Donor)	false
O2G	NH1	ARG- 379	3.18	161.54	H-Bond (Protein Donor)	false
O3G	NH1	ARG- 379	3.28	131.79	H-Bond (Protein Donor)	false
O3G	NH2	ARG- 379	2.77	156.93	H-Bond (Protein Donor)	false
O3G	CZ	ARG- 379	3.45	0	Ionic (Protein Cationic)	false
O1A	NE2	HIS- 449	3.03	140.31	H-Bond (Protein Donor)	false
O2B	MG	MG- 1608	2.29	0	Metal Acceptor	false
O2A	MG	MG- 1608	2.58	0	Metal Acceptor	false
O1G	MG	MG- 1609	2.13	0	Metal Acceptor	false
O1A	MG	MG- 1609	2.36	0	Metal Acceptor	false
O3A	MG	MG- 1609	2.49	0	Metal Acceptor	false
O2'	O	HOH- 2077	2.81	173.74	H-Bond (Protein Donor)	false
O5'	O	HOH- 2139	3.34	179.97	H-Bond (Protein Donor)	false