scPDB - 1dmy entry

Protein Data Bank Entry:

PDB ID : 1dmy

Resolution :2.450 Å

Experimental Method : X-ray

Deposition Date : 1995-10-04

Activity from ChEMBL: What is pChEMBL ?

	Min	Mean	Median	Standard Deviation	Max	Count
pChEMBL:

List of CHEMBLId :

Binding Site :

Uniprot Annotation

Name:	Carbonic anhydrase 5A, mitochondrial
ID:	CAH5A_MOUSE
AC:	P23589
Organism:	Mus musculus
Reign:	Eukaryota
TaxID:	10090
EC Number:	4.2.1.1

Chains:

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

Ligand binding site composition:

B-Factor:	18.950
Number of residues:	23
Including
Standard Amino Acids:	22
Non Standard Amino Acids:	1
Water Molecules:	0
Cofactors:
Metals:	ZN

Cavity properties

Ligandability	Volume (Å3)
0.851	388.125

% Hydrophobic	% Polar
46.09	53.91
According to VolSite

Ligand :

HET Code:	AZM
Formula:	C4H6N4O3S2
Molecular weight:	222.245 g/mol
DrugBank ID:	DB00819
Buried Surface Area:	68.63 %
Polar Surface area:	151.66 Å2

Number of
H-Bond Acceptors:	5
H-Bond Donors:	2
Rings:	1
Aromatic rings:	1
Anionic atoms:	0
Cationic atoms:	0
Rule of Five Violation:	0
Rotatable Bonds:	2

Mass center Coordinates

X	Y	Z
70.9022	56.2117	4.04477

Binding mode :

What is Poseview ?

2D View
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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
S2	CG1	VAL- 121	4.34	0	Hydrophobic	false
C4	CZ	TYR- 131	3.82	0	Hydrophobic	false
C4	CB	SER- 135	4.01	0	Hydrophobic	false
S2	CD2	LEU- 198	4.31	0	Hydrophobic	false
N1	OG1	THR- 199	3.3	165.28	H-Bond (Ligand Donor)	false
O2	N	THR- 199	3.06	152.45	H-Bond (Protein Donor)	false
N2	OG1	THR- 200	2.86	155.75	H-Bond (Protein Donor)	false
N3	OG1	THR- 200	3.42	161.99	H-Bond (Protein Donor)	false
N1	ZN	ZN- 280	1.76	0	Metal Acceptor	false