scPDB - 3fvq entry

Protein Data Bank Entry:

PDB ID : 3fvq

Resolution :1.900 Å

Experimental Method : X-ray

Deposition Date : 2009-01-16

Activity from ChEMBL: What is pChEMBL ?

	Min	Mean	Median	Standard Deviation	Max	Count
pChEMBL:

List of CHEMBLId :

Binding Site :

Uniprot Annotation

Name:	Fe(3+) ions import ATP-binding protein FbpC
ID:	FBPC_NEIG1
AC:	Q5FA19
Organism:	Neisseria gonorrhoeae
Reign:	Bacteria
TaxID:	242231
EC Number:	/

Chains:

Chain Name:	Percentage of Residues within binding site
A	62 %
B	38 %

Ligand binding site composition:

B-Factor:	14.715
Number of residues:	40
Including
Standard Amino Acids:	38
Non Standard Amino Acids:	1
Water Molecules:	1
Cofactors:
Metals:	CA

Cavity properties

Ligandability	Volume (Å3)
0.056	712.125

% Hydrophobic	% Polar
30.81	69.19
According to VolSite

Ligand :

HET Code:	ATP
Formula:	C10H12N5O13P3
Molecular weight:	503.149 g/mol
DrugBank ID:	DB00171
Buried Surface Area:	70.42 %
Polar Surface area:	319.88 Å2

Number of
H-Bond Acceptors:	17
H-Bond Donors:	3
Rings:	3
Aromatic rings:	2
Anionic atoms:	4
Cationic atoms:	0
Rule of Five Violation:	2
Rotatable Bonds:	8

Mass center Coordinates

X	Y	Z
-36.0343	-17.6074	15.1729

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
C1'	CD1	PHE- 14	4.48	0	Hydrophobic	false
C1'	CG2	VAL- 19	3.76	0	Hydrophobic	false
C5'	CG1	VAL- 19	3.54	0	Hydrophobic	false
O2G	OG	SER- 39	2.64	156.1	H-Bond (Protein Donor)	false
O3B	N	GLY- 40	2.98	157.44	H-Bond (Protein Donor)	false
O3'	O	GLY- 40	3.22	149.99	H-Bond (Ligand Donor)	false
O1B	N	GLY- 42	2.93	145.95	H-Bond (Protein Donor)	false
O3G	NZ	LYS- 43	2.69	161.7	H-Bond (Protein Donor)	false
O1B	N	LYS- 43	2.9	148.16	H-Bond (Protein Donor)	false
O1B	NZ	LYS- 43	2.88	156.06	H-Bond (Protein Donor)	false
O3G	NZ	LYS- 43	2.69	0	Ionic (Protein Cationic)	false
O1B	NZ	LYS- 43	2.88	0	Ionic (Protein Cationic)	false
O2B	N	THR- 44	2.99	153.35	H-Bond (Protein Donor)	false
O2A	OG1	THR- 45	2.68	164.38	H-Bond (Protein Donor)	false
O2A	N	THR- 45	2.87	146.51	H-Bond (Protein Donor)	false
O2'	NH1	ARG- 134	2.96	158.34	H-Bond (Protein Donor)	false
O2G	OG	SER- 140	2.69	178.46	H-Bond (Protein Donor)	false
O3B	OG	SER- 140	3.4	120.65	H-Bond (Protein Donor)	false
C3'	CB	SER- 140	4.24	0	Hydrophobic	false
O1G	N	GLY- 141	3.49	123.61	H-Bond (Protein Donor)	false
O2G	N	GLY- 142	2.84	143.03	H-Bond (Protein Donor)	false
O3'	NE2	GLN- 143	2.85	152.56	H-Bond (Protein Donor)	false
O2'	NE2	GLN- 143	3.28	124.06	H-Bond (Protein Donor)	false
O2'	OE1	GLN- 143	2.56	158.44	H-Bond (Ligand Donor)	false
O1G	CA	CA- 360	2.26	0	Metal Acceptor	false
O2B	CA	CA- 360	2.35	0	Metal Acceptor	false
O1G	O	HOH- 416	3	180	H-Bond (Protein Donor)	false