scPDB - 4hkf entry

Protein Data Bank Entry:

PDB ID : 4hkf

Resolution :1.700 Å

Experimental Method : X-ray

Deposition Date : 2012-10-15

Activity from ChEMBL: What is pChEMBL ?

	Min	Mean	Median	Standard Deviation	Max	Count
pChEMBL:

List of CHEMBLId :

Binding Site :

Uniprot Annotation

Name:	Alpha-tubulin N-acetyltransferase 1
ID:	ATAT_DANRE
AC:	Q6PH17
Organism:	Danio rerio
Reign:	Eukaryota
TaxID:	7955
EC Number:	/

Chains:

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

Ligand binding site composition:

B-Factor:	11.009
Number of residues:	40
Including
Standard Amino Acids:	38
Non Standard Amino Acids:	0
Water Molecules:	2
Cofactors:
Metals:

Cavity properties

Ligandability	Volume (Å3)
0.542	577.125

% Hydrophobic	% Polar
48.54	51.46
According to VolSite

Ligand :

HET Code:	ACO
Formula:	C23H34N7O17P3S
Molecular weight:	805.539 g/mol
DrugBank ID:	-
Buried Surface Area:	67.13 %
Polar Surface area:	429.68 Å2

Number of
H-Bond Acceptors:	22
H-Bond Donors:	5
Rings:	3
Aromatic rings:	2
Anionic atoms:	4
Cationic atoms:	0
Rule of Five Violation:	2
Rotatable Bonds:	20

Mass center Coordinates

X	Y	Z
22.1707	22.5449	4.19382

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
C6P	CG	GLN- 53	4.25	0	Hydrophobic	false
C2P	CG	GLN- 53	4.32	0	Hydrophobic	false
CH3	CG1	VAL- 115	3.81	0	Hydrophobic	false
CEP	CD2	PHE- 118	4.12	0	Hydrophobic	false
CDP	CE2	PHE- 118	3.85	0	Hydrophobic	false
N4P	O	PHE- 118	2.72	171.54	H-Bond (Ligand Donor)	false
C6P	CD1	TYR- 119	3.85	0	Hydrophobic	false
CDP	CG2	VAL- 120	4.06	0	Hydrophobic	false
O9P	N	VAL- 120	2.92	167.65	H-Bond (Protein Donor)	false
CAP	CG	GLN- 125	4.2	0	Hydrophobic	false
O7A	NE	ARG- 126	2.92	176.83	H-Bond (Protein Donor)	false
O8A	NH2	ARG- 126	2.94	160.23	H-Bond (Protein Donor)	false
O5A	N	ARG- 126	2.8	167.18	H-Bond (Protein Donor)	false
O7A	CZ	ARG- 126	3.71	0	Ionic (Protein Cationic)	false
O8A	CZ	ARG- 126	3.82	0	Ionic (Protein Cationic)	false
DuAr	CZ	ARG- 126	3.74	168.68	Pi/Cation	false
O2A	N	GLY- 128	2.9	149.45	H-Bond (Protein Donor)	false
O4A	N	GLY- 130	2.79	152.35	H-Bond (Protein Donor)	false
O1A	N	SER- 131	2.84	142.87	H-Bond (Protein Donor)	false
O1A	OG	SER- 131	2.59	156.52	H-Bond (Protein Donor)	false
O5P	OG	SER- 154	2.66	151.13	H-Bond (Protein Donor)	false
C2P	CB	SER- 154	4.45	0	Hydrophobic	false
CEP	CB	PHE- 157	4.21	0	Hydrophobic	false
S1P	CD2	PHE- 157	3.97	0	Hydrophobic	false
CH3	CE2	PHE- 157	3.6	0	Hydrophobic	false
C1B	CB	PHE- 160	4.37	0	Hydrophobic	false
CCP	CD2	PHE- 160	3.97	0	Hydrophobic	false
C5B	CD2	PHE- 160	3.78	0	Hydrophobic	false
N3A	NZ	LYS- 163	3.22	175.06	H-Bond (Protein Donor)	false
C2B	CD	LYS- 163	4.14	0	Hydrophobic	false
C5B	CD	ARG- 164	4.45	0	Hydrophobic	false
O4A	O	HOH- 419	2.63	147.26	H-Bond (Protein Donor)	false