scPDB - 1nvb entry

Protein Data Bank Entry:

PDB ID : 1nvb

Resolution :2.700 Å

Experimental Method : X-ray

Deposition Date : 2003-02-03

Activity from ChEMBL: What is pChEMBL ?

	Min	Mean	Median	Standard Deviation	Max	Count
pChEMBL:

List of CHEMBLId :

Binding Site :

Uniprot Annotation

Name:	Pentafunctional AROM polypeptide
ID:	ARO1_EMENI
AC:	P07547
Organism:	Emericella nidulans
Reign:	Eukaryota
TaxID:	227321
EC Number:	/

Chains:

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

Ligand binding site composition:

B-Factor:	17.027
Number of residues:	55
Including
Standard Amino Acids:	53
Non Standard Amino Acids:	2
Water Molecules:	0
Cofactors:
Metals:	ZN

Cavity properties

Ligandability	Volume (Å3)
1.205	1184.625

% Hydrophobic	% Polar
45.01	54.99
According to VolSite

Ligand :

HET Code:	NAD
Formula:	C21H26N7O14P2
Molecular weight:	662.417 g/mol
DrugBank ID:	-
Buried Surface Area:	64.04 %
Polar Surface area:	343.54 Å2

Number of
H-Bond Acceptors:	18
H-Bond Donors:	6
Rings:	5
Aromatic rings:	3
Anionic atoms:	2
Cationic atoms:	1
Rule of Five Violation:	3
Rotatable Bonds:	11

Mass center Coordinates

X	Y	Z
83.2276	53.5228	29.5878

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
O2B	ND2	ASN- 46	2.73	144.9	H-Bond (Protein Donor)	false
C2B	CD1	ILE- 47	4.38	0	Hydrophobic	false
O3D	OE1	GLU- 81	2.58	161.2	H-Bond (Ligand Donor)	false
O3D	NZ	LYS- 84	3.16	147.21	H-Bond (Protein Donor)	false
O1N	N	GLY- 115	2.69	159.5	H-Bond (Protein Donor)	false
O5D	N	GLY- 115	3.27	130.2	H-Bond (Protein Donor)	false
O1A	N	VAL- 116	3.15	153.25	H-Bond (Protein Donor)	false
C4D	CG2	VAL- 116	4.28	0	Hydrophobic	false
N7A	OG1	THR- 139	2.89	142.74	H-Bond (Protein Donor)	false
C5B	CG2	THR- 140	4.43	0	Hydrophobic	false
O1N	OG1	THR- 140	2.81	161.62	H-Bond (Protein Donor)	false
C5N	CD2	LEU- 142	3.73	0	Hydrophobic	false
C4N	CB	SER- 147	3.38	0	Hydrophobic	false
N7N	O	LYS- 152	2.81	145.95	H-Bond (Ligand Donor)	false
O3D	NZ	LYS- 161	2.81	139.64	H-Bond (Protein Donor)	false
O2D	NZ	LYS- 161	3.26	137.48	H-Bond (Protein Donor)	false
N6A	O	PHE- 179	3.05	125.19	H-Bond (Ligand Donor)	false
N6A	OG1	THR- 182	3.34	138.49	H-Bond (Ligand Donor)	false
N1A	OG1	THR- 182	2.96	167.15	H-Bond (Protein Donor)	false
C4B	CG	GLU- 187	4.17	0	Hydrophobic	false
C5D	CB	HIS- 287	4.38	0	Hydrophobic	false
C3D	CB	HIS- 287	4.12	0	Hydrophobic	false