scPDB - 1w5b entry

Protein Data Bank Entry:

PDB ID : 1w5b

Resolution :2.200 Å

Experimental Method : X-ray

Deposition Date : 2004-08-06

Activity from ChEMBL: What is pChEMBL ?

	Min	Mean	Median	Standard Deviation	Max	Count
pChEMBL:

List of CHEMBLId :

Binding Site :

Uniprot Annotation

Name:	Cell division protein FtsZ 1
ID:	FTSZ1_METJA
AC:	Q57816
Organism:	Methanocaldococcus jannaschii
Reign:	Archaea
TaxID:	243232
EC Number:	/

Chains:

Chain Name:	Percentage of Residues within binding site
A	95 %
B	5 %

Ligand binding site composition:

B-Factor:	27.943
Number of residues:	48
Including
Standard Amino Acids:	44
Non Standard Amino Acids:	0
Water Molecules:	4
Cofactors:
Metals:

Cavity properties

Ligandability	Volume (Å3)
0.772	1707.750

% Hydrophobic	% Polar
36.76	63.24
According to VolSite

Ligand :

HET Code:	GTP
Formula:	C10H12N5O14P3
Molecular weight:	519.149 g/mol
DrugBank ID:	DB04137
Buried Surface Area:	63 %
Polar Surface area:	335.56 Å2

Number of
H-Bond Acceptors:	17
H-Bond Donors:	4
Rings:	3
Aromatic rings:	1
Anionic atoms:	4
Cationic atoms:	0
Rule of Five Violation:	2
Rotatable Bonds:	8

Mass center Coordinates

X	Y	Z
55.3206	18.2026	38.5842

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
O1B	N	GLY- 47	2.89	172.87	H-Bond (Protein Donor)	false
O2A	N	ALA- 48	2.72	171.45	H-Bond (Protein Donor)	false
C1'	CB	ALA- 48	4.2	0	Hydrophobic	false
O3G	N	ALA- 97	2.73	159.88	H-Bond (Protein Donor)	false
O1G	N	GLY- 99	2.6	143.5	H-Bond (Protein Donor)	false
O1G	N	GLY- 134	2.84	157.87	H-Bond (Protein Donor)	false
O3G	OG1	THR- 135	2.76	175.09	H-Bond (Protein Donor)	false
O3G	N	THR- 135	3.5	127.53	H-Bond (Protein Donor)	false
O3B	N	THR- 135	3.06	168.07	H-Bond (Protein Donor)	false
O2B	N	GLY- 136	2.68	165.96	H-Bond (Protein Donor)	false
O3'	OE1	GLU- 165	2.63	160.21	H-Bond (Ligand Donor)	false
O2'	OE2	GLU- 165	2.65	156.36	H-Bond (Ligand Donor)	false
C3'	CD	ARG- 169	4.33	0	Hydrophobic	false
O3'	NH1	ARG- 169	3.04	173.15	H-Bond (Protein Donor)	false
C2'	CE1	PHE- 208	3.57	0	Hydrophobic	false
N1	OD1	ASP- 212	2.58	141.97	H-Bond (Ligand Donor)	false
N2	OD1	ASP- 212	2.59	142.06	H-Bond (Ligand Donor)	false
O2A	O	HOH- 2005	2.79	179.96	H-Bond (Protein Donor)	false
O2G	O	HOH- 2035	2.94	161.85	H-Bond (Protein Donor)	false
O2B	O	HOH- 2048	2.71	179.99	H-Bond (Protein Donor)	false