Sodium in PDB 5zoc: Crystal Structure of Aprt From Y. Pseudotuberculosis with Bound Adenine (C2 Space Group).

Enzymatic activity of Crystal Structure of Aprt From Y. Pseudotuberculosis with Bound Adenine (C2 Space Group).

All present enzymatic activity of Crystal Structure of Aprt From Y. Pseudotuberculosis with Bound Adenine (C2 Space Group).:
2.4.2.7;

Protein crystallography data

The structure of Crystal Structure of Aprt From Y. Pseudotuberculosis with Bound Adenine (C2 Space Group)., PDB code: 5zoc was solved by G.C.Pavithra, U.A.Ramagopal, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	49.92 / 1.98
*Space group*	C 1 2 1
*Cell size a, b, c (Å), α, β, γ (°)*	58.714, 77.873, 54.074, 90.00, 112.61, 90.00
*R / R_free (%)*	19.8 / 23

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of Aprt From Y. Pseudotuberculosis with Bound Adenine (C2 Space Group). (pdb code 5zoc). 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 Crystal Structure of Aprt From Y. Pseudotuberculosis with Bound Adenine (C2 Space Group)., PDB code: 5zoc:

Sodium binding site 1 out of 1 in 5zoc

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Sodium Binding Sites List in 5zoc

Sodium binding site 1 out of 1 in the Crystal Structure of Aprt From Y. Pseudotuberculosis with Bound Adenine (C2 Space Group).

Mono view

Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of Aprt From Y. Pseudotuberculosis with Bound Adenine (C2 Space Group). within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Na202 b:45.2 occ:1.00	O	A:THR117	2.2	32.3	1.0
	O	A:HOH324	2.3	34.0	1.0
	O	A:ILE120	2.3	31.1	1.0
	O	A:HOH319	2.8	42.8	1.0
	C	A:THR117	3.3	30.6	1.0
	C	A:ILE120	3.5	31.3	1.0
	CA	A:ASP118	3.8	35.9	1.0
	N	A:ASP118	4.0	34.0	1.0
	C	A:ASP118	4.1	34.1	1.0
	CA	A:GLN121	4.1	36.6	0.6
	CA	A:GLN121	4.2	36.6	0.4
	CB	A:GLN121	4.3	39.0	0.6
	N	A:GLN121	4.3	32.8	1.0
	O	A:ASP118	4.3	34.5	1.0
	N	A:ILE120	4.4	26.6	1.0
	NE2	A:GLN121	4.4	41.1	0.4
	CD2	A:LEU149	4.4	30.4	1.0
	CB	A:GLN121	4.5	39.2	0.4
	CA	A:THR117	4.5	29.3	1.0
	O	A:LEU149	4.5	29.9	1.0
	CA	A:ILE120	4.6	28.4	1.0
	CB	A:LEU149	4.6	27.7	1.0
	N	A:SER119	4.7	28.7	1.0
	CB	A:THR117	4.9	32.7	1.0
	CG	A:LEU149	4.9	26.9	1.0
	CD1	A:LEU149	4.9	24.9	1.0

Reference:

G.C.Pavithra, U.A.Ramagopal. Crystal Structure of Aprt From Y. Pseudotuberculosis with Bound Adenine (C2 Space Group). To Be Published.

Page generated: Mon Aug 18 03:23:49 2025

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