scPDB - 3pzr entry

Protein Data Bank Entry:

PDB ID : 3pzr

Resolution :1.750 Å

Experimental Method : X-ray

Deposition Date : 2010-12-14

Activity from ChEMBL: What is pChEMBL ?

	Min	Mean	Median	Standard Deviation	Max	Count
pChEMBL:

List of CHEMBLId :

Binding Site :

Uniprot Annotation

Name:	Aspartate-semialdehyde dehydrogenase 1
ID:	DHAS1_VIBCH
AC:	Q9KQG2
Organism:	Vibrio cholerae serotype O1
Reign:	Bacteria
TaxID:	243277
EC Number:	/

Chains:

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

Ligand binding site composition:

B-Factor:	13.311
Number of residues:	50
Including
Standard Amino Acids:	45
Non Standard Amino Acids:	0
Water Molecules:	5
Cofactors:
Metals:

Cavity properties

Ligandability	Volume (Å3)
0.714	391.500

% Hydrophobic	% Polar
37.07	62.93
According to VolSite

Ligand :

HET Code:	NAP
Formula:	C21H25N7O17P3
Molecular weight:	740.381 g/mol
DrugBank ID:	DB03461
Buried Surface Area:	45.82 %
Polar Surface area:	405.54 Å2

Number of
H-Bond Acceptors:	21
H-Bond Donors:	5
Rings:	5
Aromatic rings:	3
Anionic atoms:	4
Cationic atoms:	1
Rule of Five Violation:	2
Rotatable Bonds:	13

Mass center Coordinates

X	Y	Z
26.6416	59.2923	-6.21858

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
O2X	CZ	ARG- 9	3.69	0	Ionic (Protein Cationic)	false
O3X	CZ	ARG- 9	3.66	0	Ionic (Protein Cationic)	false
O2X	NH2	ARG- 9	2.78	172.97	H-Bond (Protein Donor)	false
O3X	NE	ARG- 9	2.85	167.87	H-Bond (Protein Donor)	false
DuAr	CZ	ARG- 9	3.7	11.9	Pi/Cation	false
O1A	N	MET- 11	3.06	170.1	H-Bond (Protein Donor)	false
O1N	N	VAL- 12	2.79	167.71	H-Bond (Protein Donor)	false
C5N	CG2	VAL- 12	3.88	0	Hydrophobic	false
O1X	N	THR- 36	2.75	164.92	H-Bond (Protein Donor)	false
O1X	OG1	THR- 36	2.63	167	H-Bond (Protein Donor)	false
O2X	OG	SER- 37	2.66	160.55	H-Bond (Protein Donor)	false
O3B	OE1	GLN- 72	2.81	149.26	H-Bond (Ligand Donor)	false
O2B	NE2	GLN- 72	3.28	149.68	H-Bond (Protein Donor)	false
C4N	CB	CYS- 371	3.34	0	Hydrophobic	false
O1X	O	HOH- 396	3.21	167.94	H-Bond (Protein Donor)	false