scPDB - 2p5n entry

Protein Data Bank Entry:

PDB ID : 2p5n

Resolution :1.800 Å

Experimental Method : X-ray

Deposition Date : 2007-03-15

Activity from ChEMBL: What is pChEMBL ?

	Min	Mean	Median	Standard Deviation	Max	Count
pChEMBL:

List of CHEMBLId :

Binding Site :

Uniprot Annotation

Name:	Aldo-keto reductase family 1 member C21
ID:	AK1CL_MOUSE
AC:	Q91WR5
Organism:	Mus musculus
Reign:	Eukaryota
TaxID:	10090
EC Number:	1.1.1

Chains:

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

Ligand binding site composition:

B-Factor:	25.329
Number of residues:	48
Including
Standard Amino Acids:	45
Non Standard Amino Acids:	0
Water Molecules:	3
Cofactors:
Metals:

Cavity properties

Ligandability	Volume (Å3)
0.911	965.250

% Hydrophobic	% Polar
43.01	56.99
According to VolSite

Ligand :

HET Code:	NDP
Formula:	C21H26N7O17P3
Molecular weight:	741.389 g/mol
DrugBank ID:	DB02338
Buried Surface Area:	76.4 %
Polar Surface area:	404.9 Å2

Number of
H-Bond Acceptors:	22
H-Bond Donors:	5
Rings:	5
Aromatic rings:	2
Anionic atoms:	4
Cationic atoms:	0
Rule of Five Violation:	2
Rotatable Bonds:	13

Mass center Coordinates

X	Y	Z
28.6823	28.4306	-2.73567

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
O3D	N	ALA- 24	2.98	151.04	H-Bond (Protein Donor)	false
C3D	CB	ALA- 24	3.7	0	Hydrophobic	false
O2D	OD2	ASP- 50	2.56	140.98	H-Bond (Ligand Donor)	false
C2D	CE2	TYR- 55	3.66	0	Hydrophobic	false
N7N	OG	SER- 166	2.72	156.62	H-Bond (Ligand Donor)	false
O7N	ND2	ASN- 167	2.65	152.45	H-Bond (Protein Donor)	false
N7N	OE1	GLN- 190	2.85	164.3	H-Bond (Ligand Donor)	false
DuAr	DuAr	TYR- 216	3.8	0	Aromatic Face/Face	false
O2N	N	GLY- 217	2.64	149.54	H-Bond (Protein Donor)	false
O1A	N	LEU- 219	3.07	147.37	H-Bond (Protein Donor)	false
C5B	CB	LEU- 219	3.54	0	Hydrophobic	false
O1A	N	THR- 221	2.9	140.86	H-Bond (Protein Donor)	false
C3B	CG	GLN- 222	3.95	0	Hydrophobic	false
O1N	N	GLN- 222	2.85	150.89	H-Bond (Protein Donor)	false
O1N	OH	TYR- 224	2.5	123.21	H-Bond (Protein Donor)	false
O5D	OH	TYR- 224	3.24	123.48	H-Bond (Protein Donor)	false
C4D	CB	LEU- 268	4.37	0	Hydrophobic	false
O2A	N	THR- 270	3.2	153.39	H-Bond (Protein Donor)	false
C5D	CB	THR- 270	3.93	0	Hydrophobic	false
O3D	OG1	THR- 270	2.64	161.96	H-Bond (Ligand Donor)	false
O2X	N	LEU- 272	2.83	168.57	H-Bond (Protein Donor)	false
O3X	NZ	LYS- 273	3.13	155.17	H-Bond (Protein Donor)	false
O3X	NZ	LYS- 273	3.13	0	Ionic (Protein Cationic)	false
O1X	NE	ARG- 276	3	136.45	H-Bond (Protein Donor)	false
O1X	NH2	ARG- 276	3.3	127.07	H-Bond (Protein Donor)	false
O3X	NH2	ARG- 276	3.37	126.43	H-Bond (Protein Donor)	false
O1X	CZ	ARG- 276	3.53	0	Ionic (Protein Cationic)	false
DuAr	CZ	ARG- 276	3.89	151.32	Pi/Cation	false
N6A	OE1	GLU- 279	2.84	161.09	H-Bond (Ligand Donor)	false
N7A	ND2	ASN- 280	2.99	170.11	H-Bond (Protein Donor)	false
N6A	OD1	ASN- 280	2.81	134.96	H-Bond (Ligand Donor)	false
C5N	CD1	ILE- 306	3.8	0	Hydrophobic	false
N1A	O	HOH- 1425	3.39	149.11	H-Bond (Protein Donor)	false