scPDB - 2byh entry

Protein Data Bank Entry:

PDB ID : 2byh

Resolution :1.900 Å

Experimental Method : X-ray

Deposition Date : 2005-08-02

Activity from ChEMBL: What is pChEMBL ?

	Min	Mean	Median	Standard Deviation	Max	Count
pChEMBL:

List of CHEMBLId :

Binding Site :

Uniprot Annotation

Name:	Heat shock protein HSP 90-alpha
ID:	HS90A_HUMAN
AC:	P07900
Organism:	Homo sapiens
Reign:	Eukaryota
TaxID:	9606
EC Number:	/

Chains:

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

Ligand binding site composition:

B-Factor:	13.476
Number of residues:	34
Including
Standard Amino Acids:	32
Non Standard Amino Acids:	0
Water Molecules:	2
Cofactors:
Metals:

Cavity properties

Ligandability	Volume (Å3)
0.374	489.375

% Hydrophobic	% Polar
40.00	60.00
According to VolSite

Ligand :

HET Code:	2D7
Formula:	C18H14ClN3O4
Molecular weight:	371.774 g/mol
DrugBank ID:	DB06956
Buried Surface Area:	65.05 %
Polar Surface area:	115.31 Å2

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

Mass center Coordinates

X	Y	Z
5.01088	1.83615	9.90865

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
C12	CB	ASN- 51	4.03	0	Hydrophobic	false
C2	CB	ASN- 51	3.71	0	Hydrophobic	false
C4	CB	ALA- 55	4.17	0	Hydrophobic	false
O4	OD2	ASP- 93	2.69	154.35	H-Bond (Ligand Donor)	false
N1	O	GLY- 97	2.94	123.12	H-Bond (Ligand Donor)	false
C6	CE	MET- 98	3.6	0	Hydrophobic	false
O5	ND2	ASN- 106	3.16	146.54	H-Bond (Protein Donor)	false
C16	CB	ASN- 106	3.96	0	Hydrophobic	false
C18	CD2	LEU- 107	4.48	0	Hydrophobic	false
CL1	CD2	LEU- 107	4.07	0	Hydrophobic	false
C15	CD2	LEU- 107	3.69	0	Hydrophobic	false
O6	N	PHE- 138	3.06	165.03	H-Bond (Protein Donor)	false
C18	CB	PHE- 138	4.22	0	Hydrophobic	false
CL1	CD1	PHE- 138	3.34	0	Hydrophobic	false
C14	CB	PHE- 138	4	0	Hydrophobic	false
C18	CE2	TYR- 139	4.08	0	Hydrophobic	false
C4	CB	THR- 184	3.75	0	Hydrophobic	false
C3	CG2	THR- 184	3.81	0	Hydrophobic	false
C2	CG2	VAL- 186	4.23	0	Hydrophobic	false