scPDB - 1bim entry

Protein Data Bank Entry:

PDB ID : 1bim

Resolution :2.800 Å

Experimental Method : X-ray

Deposition Date : 1995-09-27

Activity from ChEMBL: What is pChEMBL ?

	Min	Mean	Median	Standard Deviation	Max	Count
pChEMBL:

List of CHEMBLId :

Binding Site :

Uniprot Annotation

Name:	Renin
ID:	RENI_HUMAN
AC:	P00797
Organism:	Homo sapiens
Reign:	Eukaryota
TaxID:	9606
EC Number:	3.4.23.15

Chains:

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

Ligand binding site composition:

B-Factor:	10.000
Number of residues:	45
Including
Standard Amino Acids:	45
Non Standard Amino Acids:	0
Water Molecules:	0
Cofactors:
Metals:

Cavity properties

Ligandability	Volume (Å3)
1.431	1188.000

% Hydrophobic	% Polar
45.45	54.55
According to VolSite

Ligand :

HET Code:	0QB
Formula:	C36H54N6O5S
Molecular weight:	682.916 g/mol
DrugBank ID:	-
Buried Surface Area:	60.15 %
Polar Surface area:	177.41 Å2

Number of
H-Bond Acceptors:	7
H-Bond Donors:	3
Rings:	4
Aromatic rings:	2
Anionic atoms:	0
Cationic atoms:	0
Rule of Five Violation:	2
Rotatable Bonds:	14

Mass center Coordinates

X	Y	Z
36.7271	60.8715	44.0269

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
C3'	CG1	VAL- 30	3.95	0	Hydrophobic	false
O11	OD1	ASP- 32	2.76	168.61	H-Bond (Ligand Donor)	false
C11	CD1	TYR- 75	4.39	0	Hydrophobic	false
C5'	CD2	TYR- 75	4.39	0	Hydrophobic	false
C6'	CG	TYR- 75	3.53	0	Hydrophobic	false
C31	CD1	TYR- 75	3.75	0	Hydrophobic	false
O21	N	SER- 76	3.06	156.29	H-Bond (Protein Donor)	false
CG2	CG2	THR- 77	3.2	0	Hydrophobic	false
CN	CB	THR- 77	4.28	0	Hydrophobic	false
CB1	CB	THR- 77	4.47	0	Hydrophobic	false
CG	CG2	THR- 77	3.95	0	Hydrophobic	false
CE1	CB	PRO- 111	3.39	0	Hydrophobic	false
C5'	CE1	PHE- 112	4.07	0	Hydrophobic	false
CE1	CB	LEU- 114	4.42	0	Hydrophobic	false
CZ	CB	ALA- 115	4.2	0	Hydrophobic	false
C4'	CZ	PHE- 117	3.36	0	Hydrophobic	false
C2'	CG1	VAL- 120	4.32	0	Hydrophobic	false
C4'	CG2	VAL- 120	3.73	0	Hydrophobic	false
C41	CD2	LEU- 213	4.3	0	Hydrophobic	false
CM2	CD2	LEU- 213	4.24	0	Hydrophobic	false
CM3	CD2	LEU- 213	4.31	0	Hydrophobic	false
N2	O	GLY- 217	3.04	136.4	H-Bond (Ligand Donor)	false
O1	N	SER- 219	2.87	169.97	H-Bond (Protein Donor)	false
NZ	O	TYR- 220	3.28	151.84	H-Bond (Ligand Donor)	false
SE2	CB	SER- 222	4.07	0	Hydrophobic	false
NZ	OG	SER- 222	2.84	123.63	H-Bond (Ligand Donor)	false
CB1	SD	MET- 289	4.37	0	Hydrophobic	false
SE2	SD	MET- 289	4	0	Hydrophobic	false
SE2	CD1	ILE- 291	4.33	0	Hydrophobic	false
CM3	CD1	ILE- 291	3.49	0	Hydrophobic	false
SE2	CB	ALA- 300	3.85	0	Hydrophobic	false