scPDB - 2wo8 entry

Protein Data Bank Entry:

PDB ID : 2wo8

Resolution :2.000 Å

Experimental Method : X-ray

Deposition Date : 2009-07-22

Activity from ChEMBL: What is pChEMBL ?

	Min	Mean	Median	Standard Deviation	Max	Count
pChEMBL:

List of CHEMBLId :

Binding Site :

Uniprot Annotation

Name:	Macrophage metalloelastase
ID:	MMP12_HUMAN
AC:	P39900
Organism:	Homo sapiens
Reign:	Eukaryota
TaxID:	9606
EC Number:	3.4.24.65

Chains:

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

Ligand binding site composition:

B-Factor:	29.781
Number of residues:	29
Including
Standard Amino Acids:	28
Non Standard Amino Acids:	1
Water Molecules:	0
Cofactors:
Metals:	ZN

Cavity properties

Ligandability	Volume (Å3)
0.809	556.875

% Hydrophobic	% Polar
39.39	60.61
According to VolSite

Ligand :

HET Code:	077
Formula:	C17H17O3
Molecular weight:	269.315 g/mol
DrugBank ID:	-
Buried Surface Area:	68.31 %
Polar Surface area:	60.36 Å2

Number of
H-Bond Acceptors:	3
H-Bond Donors:	1
Rings:	2
Aromatic rings:	2
Anionic atoms:	1
Cationic atoms:	0
Rule of Five Violation:	0
Rotatable Bonds:	6

Mass center Coordinates

X	Y	Z
18.9136	27.7678	-2.08375

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
C17	CG2	ILE- 180	4.27	0	Hydrophobic	false
O1	N	LEU- 181	2.98	163.22	H-Bond (Protein Donor)	false
C11	CD1	LEU- 181	4.5	0	Hydrophobic	false
C16	CD1	LEU- 181	4.11	0	Hydrophobic	false
C2	CB	LEU- 214	3.9	0	Hydrophobic	false
C11	CG2	THR- 215	4.15	0	Hydrophobic	false
C14	CB	HIS- 218	3.94	0	Hydrophobic	false
C1	CG2	VAL- 235	3.98	0	Hydrophobic	false
C11	CB	TYR- 240	4.08	0	Hydrophobic	false
C4	CG1	VAL- 243	4.46	0	Hydrophobic	false
O3	ZN	ZN- 1268	2.05	0	Metal Acceptor	false
O4	ZN	ZN- 1268	2.08	0	Metal Acceptor	false