scPDB - 2zgz entry

Protein Data Bank Entry:

PDB ID : 2zgz

Resolution :2.250 Å

Experimental Method : X-ray

Deposition Date : 2008-01-30

Activity from ChEMBL: What is pChEMBL ?

	Min	Mean	Median	Standard Deviation	Max	Count
pChEMBL:

List of CHEMBLId :

Binding Site :

Uniprot Annotation

Name:	Plasmid segregation protein ParM
ID:	PARM_ECOLX
AC:	P11904
Organism:	Escherichia coli
Reign:	Bacteria
TaxID:	562
EC Number:	/

Chains:

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

Ligand binding site composition:

B-Factor:	42.331
Number of residues:	47
Including
Standard Amino Acids:	43
Non Standard Amino Acids:	1
Water Molecules:	3
Cofactors:
Metals:	MG

Cavity properties

Ligandability	Volume (Å3)
1.280	1339.875

% Hydrophobic	% Polar
40.81	59.19
According to VolSite

Ligand :

HET Code:	GNP
Formula:	C10H13N6O13P3
Molecular weight:	518.164 g/mol
DrugBank ID:	DB02082
Buried Surface Area:	61.01 %
Polar Surface area:	338.36 Å2

Number of
H-Bond Acceptors:	16
H-Bond Donors:	5
Rings:	3
Aromatic rings:	1
Anionic atoms:	4
Cationic atoms:	0
Rule of Five Violation:	2
Rotatable Bonds:	8

Mass center Coordinates

X	Y	Z
0.228438	12.8499	-7.70647

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
O2G	OG	SER- 9	3.15	169.87	H-Bond (Protein Donor)	false
O2G	N	SER- 9	2.94	159.78	H-Bond (Protein Donor)	false
O2B	N	THR- 10	2.86	145.06	H-Bond (Protein Donor)	false
C3'	CG2	THR- 10	3.9	0	Hydrophobic	false
O2B	N	ASN- 11	2.95	167.87	H-Bond (Protein Donor)	false
O1B	NZ	LYS- 13	2.81	0	Ionic (Protein Cationic)	false
O2B	NZ	LYS- 13	3.41	0	Ionic (Protein Cationic)	false
O1A	NZ	LYS- 13	2.79	0	Ionic (Protein Cationic)	false
O1A	NZ	LYS- 13	2.79	152.33	H-Bond (Protein Donor)	false
O1G	OG1	THR- 174	3.42	158	H-Bond (Protein Donor)	false
O1G	N	THR- 174	3.26	166.75	H-Bond (Protein Donor)	false
O1G	OG1	THR- 175	2.66	159.56	H-Bond (Protein Donor)	false
C5'	CG2	VAL- 199	4.23	0	Hydrophobic	false
C4'	CB	VAL- 199	3.96	0	Hydrophobic	false
O2A	N	GLY- 281	2.94	162.23	H-Bond (Protein Donor)	false
N1	OE1	GLU- 284	2.82	172.89	H-Bond (Ligand Donor)	false
N2	OE2	GLU- 284	3.42	168.18	H-Bond (Ligand Donor)	false
O3G	MG	MG- 321	2.45	0	Metal Acceptor	false
O1B	MG	MG- 321	2.28	0	Metal Acceptor	false
O1A	O	HOH- 334	2.81	179.95	H-Bond (Protein Donor)	false