scPDB - 2pdk entry

Protein Data Bank Entry:

PDB ID : 2pdk

Resolution :1.550 Å

Experimental Method : X-ray

Deposition Date : 2007-04-01

Activity from ChEMBL: What is pChEMBL ?

	Min	Mean	Median	Standard Deviation	Max	Count
pChEMBL:

List of CHEMBLId :

Binding Site :

Uniprot Annotation

Name:	Aldose reductase
ID:	ALDR_HUMAN
AC:	P15121
Organism:	Homo sapiens
Reign:	Eukaryota
TaxID:	9606
EC Number:	1.1.1.21

Chains:

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

Ligand binding site composition:

B-Factor:	15.242
Number of residues:	21
Including
Standard Amino Acids:	20
Non Standard Amino Acids:	1
Water Molecules:	0
Cofactors:	NAP
Metals:

Cavity properties

Ligandability	Volume (Å3)
0.672	357.750

% Hydrophobic	% Polar
64.15	35.85
According to VolSite

Ligand :

HET Code:	SBI
Formula:	C11H9FN2O3
Molecular weight:	236.199 g/mol
DrugBank ID:	DB02712
Buried Surface Area:	69.41 %
Polar Surface area:	67.42 Å2

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

Mass center Coordinates

X	Y	Z
16.1812	-7.98535	17.3952

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
C6	CZ2	TRP- 20	4.06	0	Hydrophobic	false
C2	CG2	VAL- 47	4.01	0	Hydrophobic	false
C1	CG1	VAL- 47	3.9	0	Hydrophobic	false
F1	CD1	TYR- 48	4.02	0	Hydrophobic	false
N2	NE2	HIS- 110	2.72	138.75	H-Bond (Ligand Donor)	false
O3	NE1	TRP- 111	2.73	163.21	H-Bond (Protein Donor)	false
C5	CZ2	TRP- 111	4.22	0	Hydrophobic	false
C5	CH2	TRP- 219	4.23	0	Hydrophobic	false
C6	SG	CYS- 298	3.61	0	Hydrophobic	false
C5	CD1	LEU- 300	4.32	0	Hydrophobic	false