scPDB - 1w2c entry

Protein Data Bank Entry:

PDB ID : 1w2c

Resolution :1.950 Å

Experimental Method : X-ray

Deposition Date : 2004-07-01

Activity from ChEMBL: What is pChEMBL ?

	Min	Mean	Median	Standard Deviation	Max	Count
pChEMBL:

List of CHEMBLId :

Binding Site :

Uniprot Annotation

Name:	Inositol-trisphosphate 3-kinase A
ID:	IP3KA_HUMAN
AC:	P23677
Organism:	Homo sapiens
Reign:	Eukaryota
TaxID:	9606
EC Number:	2.7.1.127

Chains:

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

Ligand binding site composition:

B-Factor:	18.147
Number of residues:	27
Including
Standard Amino Acids:	24
Non Standard Amino Acids:	2
Water Molecules:	1
Cofactors:
Metals:	MN

Cavity properties

Ligandability	Volume (Å3)
0.605	438.750

% Hydrophobic	% Polar
67.69	32.31
According to VolSite

Ligand :

HET Code:	ANP
Formula:	C10H13N6O12P3
Molecular weight:	502.164 g/mol
DrugBank ID:	-
Buried Surface Area:	50.29 %
Polar Surface area:	322.68 Å2

Number of
H-Bond Acceptors:	16
H-Bond Donors:	4
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
21.6332	28.3819	77.5577

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
C5'	CE1	PHE- 198	3.81	0	Hydrophobic	false
C1'	CZ	PHE- 198	4.43	0	Hydrophobic	false
O2B	NZ	LYS- 209	3.15	124.99	H-Bond (Protein Donor)	false
O2A	NZ	LYS- 209	2.86	155.25	H-Bond (Protein Donor)	false
O2B	NZ	LYS- 209	3.15	0	Ionic (Protein Cationic)	false
O2A	NZ	LYS- 209	2.86	0	Ionic (Protein Cationic)	false
N6	O	GLN- 249	2.79	162.31	H-Bond (Ligand Donor)	false
N1	N	LEU- 251	3.05	162.84	H-Bond (Protein Donor)	false
O3'	OD2	ASP- 262	2.81	136.91	H-Bond (Ligand Donor)	false
O2'	NZ	LYS- 336	2.72	162.67	H-Bond (Protein Donor)	false
C2'	CD1	LEU- 401	3.72	0	Hydrophobic	false
C3'	CD1	ILE- 415	3.86	0	Hydrophobic	false
O1G	MN	MN- 1464	2.49	0	Metal Acceptor	false
O1A	MN	MN- 1464	2.12	0	Metal Acceptor	false