Sodium in PDB 8pzy: Intracellular Leucine Aminopeptidase of Pseudomonas Aeruginosa PA14 - Hexameric Assembly with Manganese Bound

Enzymatic activity of Intracellular Leucine Aminopeptidase of Pseudomonas Aeruginosa PA14 - Hexameric Assembly with Manganese Bound

All present enzymatic activity of Intracellular Leucine Aminopeptidase of Pseudomonas Aeruginosa PA14 - Hexameric Assembly with Manganese Bound:
3.4.11.1; 3.4.11.10;

Protein crystallography data

The structure of Intracellular Leucine Aminopeptidase of Pseudomonas Aeruginosa PA14 - Hexameric Assembly with Manganese Bound, PDB code: 8pzy was solved by M.C.Simpson, C.M.Czekster, C.J.Harding, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	52.75 / 1.97
*Space group*	P 2₁ 2₁ 2₁
*Cell size a, b, c (Å), α, β, γ (°)*	87.53, 183.03, 316.53, 90, 90, 90
*R / R_free (%)*	17.6 / 20.4

Other elements in 8pzy:

The structure of Intracellular Leucine Aminopeptidase of Pseudomonas Aeruginosa PA14 - Hexameric Assembly with Manganese Bound also contains other interesting chemical elements:

Manganese

(Mn)

12 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Intracellular Leucine Aminopeptidase of Pseudomonas Aeruginosa PA14 - Hexameric Assembly with Manganese Bound (pdb code 8pzy). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the Intracellular Leucine Aminopeptidase of Pseudomonas Aeruginosa PA14 - Hexameric Assembly with Manganese Bound, PDB code: 8pzy:

Sodium binding site 1 out of 1 in 8pzy

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Sodium Binding Sites List in 8pzy

Sodium binding site 1 out of 1 in the Intracellular Leucine Aminopeptidase of Pseudomonas Aeruginosa PA14 - Hexameric Assembly with Manganese Bound

Mono view

Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Intracellular Leucine Aminopeptidase of Pseudomonas Aeruginosa PA14 - Hexameric Assembly with Manganese Bound within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Na611 b:59.9 occ:1.00	O	A:HOH770	2.9	38.1	1.0
	MN	A:MN609	2.9	33.4	1.0
	OD1	A:ASP310	3.1	38.0	1.0
	O	A:HOH915	3.3	37.8	1.0
	O	A:THR396	3.6	38.2	1.0
	OD2	A:ASP292	3.6	33.0	1.0
	CG	A:ASP310	3.7	36.4	1.0
	OD2	A:ASP310	3.8	35.0	1.0
	NZ	A:LYS287	3.9	34.5	1.0
	MN	A:MN610	4.1	34.6	1.0
	SD	A:MET307	4.1	42.5	1.0
	O	A:LEU397	4.4	41.6	1.0
	NZ	A:LYS299	4.4	33.5	1.0
	CG	A:ASP292	4.7	33.7	1.0
	C	A:THR396	4.7	35.3	1.0
	C	A:LEU397	4.9	39.9	1.0
	CE	A:LYS299	4.9	34.8	1.0
	OE2	A:GLU371	5.0	36.5	1.0
	CB	A:ASP292	5.0	35.9	1.0
	OG1	A:THR396	5.0	35.9	1.0

Reference:

M.C.Simpson, C.J.Harding, R.M.Czekster, L.Remmel, B.E.Bode, C.M.Czekster. Unveiling the Catalytic Mechanism of A Processive Metalloaminopeptidase. Biochemistry 2023.
ISSN: ISSN 0006-2960
PubMed: 37924287
DOI: 10.1021/ACS.BIOCHEM.3C00420

Page generated: Thu Dec 28 11:44:28 2023

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