scPDB - 1z6p entry

Protein Data Bank Entry:

PDB ID : 1z6p

Resolution :2.400 Å

Experimental Method : X-ray

Deposition Date : 2005-03-23

Activity from ChEMBL: What is pChEMBL ?

	Min	Mean	Median	Standard Deviation	Max	Count
pChEMBL:

List of CHEMBLId :

Binding Site :

Uniprot Annotation

Name:	Glycogen phosphorylase, muscle form
ID:	PYGM_RABIT
AC:	P00489
Organism:	Oryctolagus cuniculus
Reign:	Eukaryota
TaxID:	9986
EC Number:	2.4.1.1

Chains:

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

Ligand binding site composition:

B-Factor:	29.459
Number of residues:	30
Including
Standard Amino Acids:	29
Non Standard Amino Acids:	0
Water Molecules:	1
Cofactors:
Metals:

Cavity properties

Ligandability	Volume (Å3)
0.090	492.750

% Hydrophobic	% Polar
47.26	52.74
According to VolSite

Ligand :

HET Code:	194
Formula:	C21H12N2O8
Molecular weight:	420.329 g/mol
DrugBank ID:	DB04044
Buried Surface Area:	51.49 %
Polar Surface area:	164.41 Å2

Number of
H-Bond Acceptors:	8
H-Bond Donors:	1
Rings:	3
Aromatic rings:	3
Anionic atoms:	3
Cationic atoms:	1
Rule of Five Violation:	0
Rotatable Bonds:	7

Mass center Coordinates

X	Y	Z
27.1811	0.756484	51.3611

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
N1	O	ILE- 68	2.88	131.5	H-Bond (Ligand Donor)	false
C51	CG1	ILE- 68	4.22	0	Hydrophobic	false
C31	CB	GLN- 71	4.4	0	Hydrophobic	false
C51	CB	GLN- 71	4.27	0	Hydrophobic	false
C4	CB	GLN- 71	4.09	0	Hydrophobic	false
C57	CG	GLN- 71	3.39	0	Hydrophobic	false
C31	CB	GLN- 72	4.23	0	Hydrophobic	false
C35	CG	GLN- 72	3.36	0	Hydrophobic	false
C4	CB	TYR- 75	3.62	0	Hydrophobic	false
C38	CB	TYR- 75	3.42	0	Hydrophobic	false
O5	NH1	ARG- 81	2.79	123.17	H-Bond (Protein Donor)	false
O5	CZ	ARG- 81	3.38	0	Ionic (Protein Cationic)	false
O4	OH	TYR- 155	2.75	133.63	H-Bond (Protein Donor)	false
O7	CZ	ARG- 193	2.63	0	Ionic (Protein Cationic)	false
O8	CZ	ARG- 193	3.51	0	Ionic (Protein Cationic)	false
O1	NH1	ARG- 309	3.09	153.64	H-Bond (Protein Donor)	false
O2	CZ	ARG- 310	3.57	0	Ionic (Protein Cationic)	false
O4	NE	ARG- 310	2.94	128.64	H-Bond (Protein Donor)	false