Calcium in PDB 6z9d: Human Ecto-5'-Nucleotidase (CD73) in Complex with Aopcp Derivative AB680 (Compound 55 in Publication) in the Closed Form (Crystal Form III)

Enzymatic activity of Human Ecto-5'-Nucleotidase (CD73) in Complex with Aopcp Derivative AB680 (Compound 55 in Publication) in the Closed Form (Crystal Form III)

All present enzymatic activity of Human Ecto-5'-Nucleotidase (CD73) in Complex with Aopcp Derivative AB680 (Compound 55 in Publication) in the Closed Form (Crystal Form III):
3.1.3.5;

Protein crystallography data

The structure of Human Ecto-5'-Nucleotidase (CD73) in Complex with Aopcp Derivative AB680 (Compound 55 in Publication) in the Closed Form (Crystal Form III), PDB code: 6z9d was solved by N.Strater, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	47.13 / 1.90
*Space group*	C 2 2 2₁
*Cell size a, b, c (Å), α, β, γ (°)*	53.226, 94.254, 235.428, 90.00, 90.00, 90.00
*R / R_free (%)*	21.1 / 25.4

Other elements in 6z9d:

The structure of Human Ecto-5'-Nucleotidase (CD73) in Complex with Aopcp Derivative AB680 (Compound 55 in Publication) in the Closed Form (Crystal Form III) also contains other interesting chemical elements:

Fluorine	(F)	2 atoms
Zinc	(Zn)	2 atoms
Chlorine	(Cl)	2 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the Human Ecto-5'-Nucleotidase (CD73) in Complex with Aopcp Derivative AB680 (Compound 55 in Publication) in the Closed Form (Crystal Form III) (pdb code 6z9d). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total only one binding site of Calcium was determined in the Human Ecto-5'-Nucleotidase (CD73) in Complex with Aopcp Derivative AB680 (Compound 55 in Publication) in the Closed Form (Crystal Form III), PDB code: 6z9d:

Calcium binding site 1 out of 1 in 6z9d

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Calcium Binding Sites List in 6z9d

Calcium binding site 1 out of 1 in the Human Ecto-5'-Nucleotidase (CD73) in Complex with Aopcp Derivative AB680 (Compound 55 in Publication) in the Closed Form (Crystal Form III)

Mono view

Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Human Ecto-5'-Nucleotidase (CD73) in Complex with Aopcp Derivative AB680 (Compound 55 in Publication) in the Closed Form (Crystal Form III) within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Ca603 b:62.4 occ:1.00	O	A:ASN213	2.3	39.1	1.0
	O	A:GLY298	2.4	42.0	1.0
	O	A:HOH727	2.4	39.2	1.0
	OD2	A:ASP237	2.6	34.6	1.0
	OD1	A:ASP237	2.7	35.7	1.0
	O	A:HOH946	2.7	61.3	1.0
	CG	A:ASP237	3.0	38.2	1.0
	C	A:GLY298	3.2	43.0	1.0
	O	A:HOH941	3.3	65.1	1.0
	C	A:ASN213	3.5	40.3	1.0
	CA	A:GLY298	3.7	40.3	1.0
	N	A:ASN299	4.2	39.6	1.0
	N	A:LYS214	4.3	36.9	1.0
	CA	A:LYS214	4.3	34.6	1.0
	CA	A:ASN213	4.4	37.9	1.0
	CB	A:ASP237	4.5	34.0	1.0
	O	A:ARG297	4.5	43.0	1.0
	CA	A:ASN299	4.6	39.0	1.0
	NZ	A:LYS208	4.7	55.4	1.0
	O	A:GLY235	4.7	35.1	1.0
	CB	A:ASN213	4.7	37.7	1.0
	O	A:HOH729	4.8	53.0	1.0
	N	A:ILE215	4.8	32.7	1.0
	N	A:GLY298	4.9	41.0	1.0

Reference:

K.V.Lawson, J.Kalisiak, E.A.Lindsey, E.T.Newcomb, M.R.Leleti, L.Debien, B.R.Rosen, D.H.Miles, E.U.Sharif, J.L.Jeffrey, J.B.L.Tan, A.Chen, S.Zhao, G.Xu, L.Fu, L.Jin, T.W.Park, W.Berry, S.Moschutz, E.Scaletti, N.Strater, N.P.Walker, S.W.Young, M.J.Walters, U.Schindler, J.P.Powers. Discovery of AB680: A Potent and Selective Inhibitor of CD73. J.Med.Chem. V. 63 11448 2020.
ISSN: ISSN 0022-2623
PubMed: 32614585
DOI: 10.1021/ACS.JMEDCHEM.0C00525

Page generated: Thu Jul 18 22:37:39 2024

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