scPDB - 1wy7 entry

Protein Data Bank Entry:

PDB ID : 1wy7

Resolution :2.200 Å

Experimental Method : X-ray

Deposition Date : 2005-02-08

Activity from ChEMBL: What is pChEMBL ?

	Min	Mean	Median	Standard Deviation	Max	Count
pChEMBL:

List of CHEMBLId :

Binding Site :

Uniprot Annotation

Name:	Uncharacterized protein
ID:	O59611_PYRHO
AC:	O59611
Organism:	Pyrococcus horikoshii
Reign:	Archaea
TaxID:	70601
EC Number:	/

Chains:

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

Ligand binding site composition:

B-Factor:	46.709
Number of residues:	37
Including
Standard Amino Acids:	36
Non Standard Amino Acids:	0
Water Molecules:	1
Cofactors:
Metals:

Cavity properties

Ligandability	Volume (Å3)
0.201	378.000

% Hydrophobic	% Polar
42.86	57.14
According to VolSite

Ligand :

HET Code:	SAH
Formula:	C14H20N6O5S
Molecular weight:	384.411 g/mol
DrugBank ID:	DB01752
Buried Surface Area:	78.8 %
Polar Surface area:	212.38 Å2

Number of
H-Bond Acceptors:	10
H-Bond Donors:	4
Rings:	3
Aromatic rings:	2
Anionic atoms:	1
Cationic atoms:	1
Rule of Five Violation:	1
Rotatable Bonds:	7

Mass center Coordinates

X	Y	Z
12.2121	7.14658	6.88219

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
CB	CZ	PHE- 18	4.11	0	Hydrophobic	false
C3'	CZ	PHE- 18	4.32	0	Hydrophobic	false
C2'	CB	LEU- 25	4.25	0	Hydrophobic	false
O2'	NE2	GLN- 27	2.99	168.65	H-Bond (Protein Donor)	false
C3'	CG	GLN- 27	3.85	0	Hydrophobic	false
O	N	LEU- 63	3.27	175.62	H-Bond (Protein Donor)	false
O3'	OE1	GLU- 79	2.96	175.35	H-Bond (Ligand Donor)	false
O2'	OE2	GLU- 79	2.66	151.7	H-Bond (Ligand Donor)	false
O2'	OE1	GLU- 79	3.42	134.66	H-Bond (Ligand Donor)	false
N3	N	VAL- 80	3.48	146.06	H-Bond (Protein Donor)	false
N6	OD2	ASP- 105	2.91	148.56	H-Bond (Ligand Donor)	false
N1	N	VAL- 106	3.1	148.87	H-Bond (Protein Donor)	false
CG	CB	ASN- 119	4.32	0	Hydrophobic	false