scPDB - 1nvf entry

Protein Data Bank Entry:

PDB ID : 1nvf

Resolution :2.800 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
C	100 %

Ligand binding site composition:

B-Factor:	29.211
Number of residues:	34
Including
Standard Amino Acids:	34
Non Standard Amino Acids:	0
Water Molecules:	0
Cofactors:
Metals:

Cavity properties

Ligandability	Volume (Å3)
1.171	1221.750

% Hydrophobic	% Polar
45.30	54.70
According to VolSite

Ligand :

HET Code:	ADP
Formula:	C10H12N5O10P2
Molecular weight:	424.177 g/mol
DrugBank ID:	-
Buried Surface Area:	57.65 %
Polar Surface area:	260.7 Å2

Number of
H-Bond Acceptors:	14
H-Bond Donors:	3
Rings:	3
Aromatic rings:	2
Anionic atoms:	3
Cationic atoms:	0
Rule of Five Violation:	1
Rotatable Bonds:	6

Mass center Coordinates

X	Y	Z
-2.80381	91.7227	64.8661

Binding mode :

What is Poseview ?

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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
O2'	OD2	ASP- 44	2.78	169.87	H-Bond (Ligand Donor)	false
O2'	OD1	ASP- 44	3.19	126.33	H-Bond (Ligand Donor)	false
O2'	ND2	ASN- 46	3.09	159.07	H-Bond (Protein Donor)	false
C2'	CD1	ILE- 47	3.63	0	Hydrophobic	false
O1B	N	GLY- 115	2.83	160.32	H-Bond (Protein Donor)	false
O1A	N	VAL- 116	3.35	162.56	H-Bond (Protein Donor)	false
N7	OG1	THR- 139	2.79	161.63	H-Bond (Protein Donor)	false
N6	O	THR- 139	2.9	149	H-Bond (Ligand Donor)	false
O1B	OG1	THR- 140	2.61	158.89	H-Bond (Protein Donor)	false
N6	O	PHE- 179	3.15	140.25	H-Bond (Ligand Donor)	false
N1	OG1	THR- 182	2.84	169.37	H-Bond (Protein Donor)	false
C5'	CG	GLU- 187	4.1	0	Hydrophobic	false
O2B	ND2	ASN- 190	3.46	137.32	H-Bond (Protein Donor)	false