scPDB - 4cid entry

Protein Data Bank Entry:

PDB ID : 4cid

Resolution :3.000 Å

Experimental Method : X-ray

Deposition Date : 2013-12-06

Activity from ChEMBL: What is pChEMBL ?

	Min	Mean	Median	Standard Deviation	Max	Count
pChEMBL:

List of CHEMBLId :

Binding Site :

Uniprot Annotation

Name:	EH domain-containing protein 2
ID:	EHD2_MOUSE
AC:	Q8BH64
Organism:	Mus musculus
Reign:	Eukaryota
TaxID:	10090
EC Number:	/

Chains:

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

Ligand binding site composition:

B-Factor:	78.338
Number of residues:	36
Including
Standard Amino Acids:	35
Non Standard Amino Acids:	1
Water Molecules:	0
Cofactors:
Metals:	MG

Cavity properties

Ligandability	Volume (Å3)
0.099	388.125

% Hydrophobic	% Polar
52.17	47.83
According to VolSite

Ligand :

HET Code:	ANP
Formula:	C10H13N6O12P3
Molecular weight:	502.164 g/mol
DrugBank ID:	-
Buried Surface Area:	72.44 %
Polar Surface area:	322.68 Å2

Number of
H-Bond Acceptors:	16
H-Bond Donors:	4
Rings:	3
Aromatic rings:	2
Anionic atoms:	4
Cationic atoms:	0
Rule of Five Violation:	2
Rotatable Bonds:	8

Mass center Coordinates

X	Y	Z
10.0219	-58.3752	-4.86552

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
O1G	N	SER- 68	3.25	148.22	H-Bond (Protein Donor)	false
C5'	CB	SER- 68	3.94	0	Hydrophobic	false
O1B	N	GLY- 70	3.02	160.4	H-Bond (Protein Donor)	false
O1G	NZ	LYS- 71	3.2	131.34	H-Bond (Protein Donor)	false
O3G	NZ	LYS- 71	3.35	126.65	H-Bond (Protein Donor)	false
O1B	N	LYS- 71	3.15	162.25	H-Bond (Protein Donor)	false
O1G	NZ	LYS- 71	3.2	0	Ionic (Protein Cationic)	false
O3G	NZ	LYS- 71	3.35	0	Ionic (Protein Cationic)	false
O2B	N	THR- 72	3.06	158.45	H-Bond (Protein Donor)	false
O2A	N	SER- 73	2.95	145.53	H-Bond (Protein Donor)	false
C3'	CG2	VAL- 88	3.95	0	Hydrophobic	false
O1A	N	GLY- 89	3.29	176.74	H-Bond (Protein Donor)	false
O2G	N	THR- 93	3.28	144.97	H-Bond (Protein Donor)	false
O4'	NZ	LYS- 220	3.33	155.45	H-Bond (Protein Donor)	false
DuAr	DuAr	TRP- 258	3.78	0	Aromatic Face/Face	false
C2'	CH2	TRP- 258	3.93	0	Hydrophobic	false
O3G	MG	MG- 1541	1.88	0	Metal Acceptor	false
O2B	MG	MG- 1541	2.19	0	Metal Acceptor	false