scPDB - 4bx7 entry

Protein Data Bank Entry:

PDB ID : 4bx7

Resolution :2.260 Å

Experimental Method : X-ray

Deposition Date : 2013-07-08

Activity from ChEMBL: What is pChEMBL ?

	Min	Mean	Median	Standard Deviation	Max	Count
pChEMBL:

List of CHEMBLId :

Binding Site :

Uniprot Annotation

Name:	Streptavidin
ID:	SAV_STRAV
AC:	P22629
Organism:	Streptomyces avidinii
Reign:	Bacteria
TaxID:	1895
EC Number:	/

Chains:

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

Ligand binding site composition:

B-Factor:	42.413
Number of residues:	31
Including
Standard Amino Acids:	31
Non Standard Amino Acids:	0
Water Molecules:	0
Cofactors:
Metals:

Cavity properties

Ligandability	Volume (Å3)
0.842	320.625

% Hydrophobic	% Polar
61.05	38.95
According to VolSite

Ligand :

HET Code:	B4F
Formula:	C33H31N4O8S
Molecular weight:	643.686 g/mol
DrugBank ID:	-
Buried Surface Area:	43.26 %
Polar Surface area:	211.28 Å2

Number of
H-Bond Acceptors:	9
H-Bond Donors:	5
Rings:	6
Aromatic rings:	2
Anionic atoms:	1
Cationic atoms:	0
Rule of Five Violation:	2
Rotatable Bonds:	11

Mass center Coordinates

X	Y	Z
49.0568	45.7165	27.6776

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
O1	ND2	ASN- 23	2.93	138.07	H-Bond (Protein Donor)	false
O1	OG	SER- 27	2.94	139.69	H-Bond (Protein Donor)	false
N2	OG	SER- 45	3.03	171.31	H-Bond (Ligand Donor)	false
C6	CB	SER- 45	4.38	0	Hydrophobic	false
C6	CG2	VAL- 47	4.32	0	Hydrophobic	false
O2	N	ASN- 49	2.97	138.29	H-Bond (Protein Donor)	false
C8	CB	ALA- 50	4.45	0	Hydrophobic	false
C6	CZ2	TRP- 79	3.91	0	Hydrophobic	false
C9	CD2	TRP- 79	3.74	0	Hydrophobic	false
S1	CZ2	TRP- 79	3.56	0	Hydrophobic	false
C8	CE2	TRP- 79	3.84	0	Hydrophobic	false
C9	CB	ALA- 86	4.25	0	Hydrophobic	false
S1	CG2	THR- 90	3.74	0	Hydrophobic	false
S1	CZ2	TRP- 92	3.81	0	Hydrophobic	false
C4	CE2	TRP- 108	3.45	0	Hydrophobic	false
C5	CD2	LEU- 110	4.08	0	Hydrophobic	false
C7	CD2	LEU- 110	3.56	0	Hydrophobic	false
O8	NZ	LYS- 121	2.7	122.4	H-Bond (Protein Donor)	false
C31	CD	LYS- 121	3.54	0	Hydrophobic	false
C17	CD2	LEU- 124	4.24	0	Hydrophobic	false
C16	CD1	LEU- 124	3.65	0	Hydrophobic	false
N1	OD2	ASP- 128	2.76	174.75	H-Bond (Ligand Donor)	false