scPDB - 1z7y entry

Protein Data Bank Entry:

PDB ID : 1z7y

Resolution :2.700 Å

Experimental Method : X-ray

Deposition Date : 2005-03-28

Activity from ChEMBL: What is pChEMBL ?

	Min	Mean	Median	Standard Deviation	Max	Count
pChEMBL:

List of CHEMBLId :

Binding Site :

Uniprot Annotation

Name:	Cysteine synthase 1
ID:	CYSK1_ARATH
AC:	P47998
Organism:	Arabidopsis thaliana
Reign:	Eukaryota
TaxID:	3702
EC Number:	2.5.1.47

Chains:

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

Ligand binding site composition:

B-Factor:	19.845
Number of residues:	36
Including
Standard Amino Acids:	35
Non Standard Amino Acids:	0
Water Molecules:	1
Cofactors:
Metals:

Cavity properties

Ligandability	Volume (Å3)
1.117	621.000

% Hydrophobic	% Polar
41.85	58.15
According to VolSite

Ligand :

HET Code:	AA5
Formula:	C13H16N2O7PS
Molecular weight:	375.314 g/mol
DrugBank ID:	-
Buried Surface Area:	66.22 %
Polar Surface area:	193.14 Å2

Number of
H-Bond Acceptors:	10
H-Bond Donors:	1
Rings:	1
Aromatic rings:	1
Anionic atoms:	3
Cationic atoms:	0
Rule of Five Violation:	0
Rotatable Bonds:	9

Mass center Coordinates

X	Y	Z
80.5211	43.6448	-15.1637

Binding mode :

What is Poseview ?

2D View
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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
C4	CG1	VAL- 45	4.22	0	Hydrophobic	false
O1	OG1	THR- 74	2.84	152.24	H-Bond (Protein Donor)	false
O1	N	THR- 78	3.49	141.94	H-Bond (Protein Donor)	false
O2	N	THR- 78	3.47	165.21	H-Bond (Protein Donor)	false
O1	NE2	GLN- 147	2.71	151.81	H-Bond (Protein Donor)	false
CE	CZ	PHE- 148	4.38	0	Hydrophobic	false
CB	CG2	THR- 182	3.93	0	Hydrophobic	false
O3P	OG1	THR- 182	2.98	150.34	H-Bond (Protein Donor)	false
O3P	N	THR- 182	2.57	164.4	H-Bond (Protein Donor)	false
O2P	N	GLY- 183	3.1	155.58	H-Bond (Protein Donor)	false
O1P	OG1	THR- 185	2.75	140.33	H-Bond (Protein Donor)	false
O1P	N	THR- 185	2.77	156.64	H-Bond (Protein Donor)	false
C5A	CG2	ILE- 226	4.16	0	Hydrophobic	false
C2A	CB	SER- 269	4.2	0	Hydrophobic	false
N1	OG	SER- 269	3.1	141.59	H-Bond (Protein Donor)	false
C2A	CB	PRO- 296	3.91	0	Hydrophobic	false
C3	CB	PRO- 296	4.35	0	Hydrophobic	false
C2A	CB	SER- 297	3.58	0	Hydrophobic	false
C2A	CZ	TYR- 302	4.4	0	Hydrophobic	false