scPDB - 2o28 entry

Protein Data Bank Entry:

PDB ID : 2o28

Resolution :1.800 Å

Experimental Method : X-ray

Deposition Date : 2006-11-29

Activity from ChEMBL: What is pChEMBL ?

	Min	Mean	Median	Standard Deviation	Max	Count
pChEMBL:

List of CHEMBLId :

Binding Site :

Uniprot Annotation

Name:	Glucosamine 6-phosphate N-acetyltransferase
ID:	GNA1_HUMAN
AC:	Q96EK6
Organism:	Homo sapiens
Reign:	Eukaryota
TaxID:	9606
EC Number:	/

Chains:

Chain Name:	Percentage of Residues within binding site
A	97 %
B	3 %

Ligand binding site composition:

B-Factor:	27.038
Number of residues:	36
Including
Standard Amino Acids:	32
Non Standard Amino Acids:	1
Water Molecules:	3
Cofactors:
Metals:

Cavity properties

Ligandability	Volume (Å3)
0.228	351.000

% Hydrophobic	% Polar
46.15	53.85
According to VolSite

Ligand :

HET Code:	COA
Formula:	C21H32N7O16P3S
Molecular weight:	763.502 g/mol
DrugBank ID:	DB01992
Buried Surface Area:	50.51 %
Polar Surface area:	426.11 Å2

Number of
H-Bond Acceptors:	21
H-Bond Donors:	6
Rings:	3
Aromatic rings:	2
Anionic atoms:	4
Cationic atoms:	0
Rule of Five Violation:	3
Rotatable Bonds:	18

Mass center Coordinates

X	Y	Z
-5.88962	27.6607	23.0955

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
C6P	CD1	LEU- 60	3.87	0	Hydrophobic	false
C2P	CD1	LEU- 60	3.95	0	Hydrophobic	false
N4P	O	VAL- 122	2.65	154.87	H-Bond (Ligand Donor)	false
C6P	CG2	VAL- 123	4.04	0	Hydrophobic	false
CAP	CG2	VAL- 124	4.18	0	Hydrophobic	false
O9P	N	VAL- 124	2.59	157.68	H-Bond (Protein Donor)	false
CDP	CD	ARG- 129	3.76	0	Hydrophobic	false
O5A	N	GLY- 130	3.15	150.55	H-Bond (Protein Donor)	false
O1A	N	GLN- 132	2.83	145.79	H-Bond (Protein Donor)	false
O9A	NZ	LYS- 135	2.56	153.33	H-Bond (Protein Donor)	false
O2A	N	LYS- 135	2.85	161.47	H-Bond (Protein Donor)	false
O9A	NZ	LYS- 135	2.56	0	Ionic (Protein Cationic)	false
C4B	CD	LYS- 135	4.1	0	Hydrophobic	false
S1P	CB	CYS- 157	3.61	0	Hydrophobic	false
N6A	O	GLN- 160	3.35	151	H-Bond (Ligand Donor)	false
O5P	ND2	ASN- 161	3.39	144.3	H-Bond (Protein Donor)	false
C1B	CD1	PHE- 164	4.16	0	Hydrophobic	false
CCP	CE1	PHE- 164	3.97	0	Hydrophobic	false
S1P	CE2	TYR- 165	3.97	0	Hydrophobic	false
O8A	NZ	LYS- 167	3.28	146.18	H-Bond (Protein Donor)	false
O8A	NZ	LYS- 167	3.28	0	Ionic (Protein Cationic)	false
O5A	O	HOH- 511	2.77	156.97	H-Bond (Protein Donor)	false
O9A	O	HOH- 652	3.02	152.64	H-Bond (Protein Donor)	false