scPDB - 1ngb entry

Protein Data Bank Entry:

PDB ID : 1ngb

Resolution :2.180 Å

Experimental Method : X-ray

Deposition Date : 1994-05-17

Activity from ChEMBL: What is pChEMBL ?

	Min	Mean	Median	Standard Deviation	Max	Count
pChEMBL:	6.960	6.960	6.960	0.000	6.960	1

List of CHEMBLId :

CHEMBL14830

Binding Site :

Uniprot Annotation

Name:	Heat shock cognate 71 kDa protein
ID:	HSP7C_BOVIN
AC:	P19120
Organism:	Bos taurus
Reign:	Eukaryota
TaxID:	9913
EC Number:	/

Chains:

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

Ligand binding site composition:

B-Factor:	13.313
Number of residues:	46
Including
Standard Amino Acids:	42
Non Standard Amino Acids:	1
Water Molecules:	3
Cofactors:
Metals:	MG

Cavity properties

Ligandability	Volume (Å3)
0.729	1387.125

% Hydrophobic	% Polar
34.55	65.45
According to VolSite

Ligand :

HET Code:	ADP
Formula:	C10H12N5O10P2
Molecular weight:	424.177 g/mol
DrugBank ID:	-
Buried Surface Area:	71.67 %
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
20.6174	35.2147	16.3027

Binding mode :

What is Poseview ?

2D View
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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
O3B	N	THR- 14	2.79	150.56	H-Bond (Protein Donor)	false
O3B	OG1	THR- 14	2.66	164.49	H-Bond (Protein Donor)	false
O3B	N	TYR- 15	2.76	160.45	H-Bond (Protein Donor)	false
C5'	CD1	TYR- 15	3.55	0	Hydrophobic	false
C3'	CE1	TYR- 15	4.07	0	Hydrophobic	false
O1B	N	GLY- 202	2.63	161.82	H-Bond (Protein Donor)	false
O2'	OE2	GLU- 268	2.53	161	H-Bond (Ligand Donor)	false
O3'	NZ	LYS- 271	3.41	123.09	H-Bond (Protein Donor)	false
O2'	NZ	LYS- 271	2.7	153.89	H-Bond (Protein Donor)	false
N1	OG	SER- 275	2.77	160.5	H-Bond (Protein Donor)	false
O1A	N	GLY- 339	2.93	137.07	H-Bond (Protein Donor)	false
O5'	N	GLY- 339	3.33	141.22	H-Bond (Protein Donor)	false
N7	NH1	ARG- 342	3.36	136.32	H-Bond (Protein Donor)	false
O2B	MG	MG- 487	1.9	0	Metal Acceptor	false
N3	O	HOH- 531	2.87	168.44	H-Bond (Protein Donor)	false