Sodium in PDB 3h7m: Crystal Structure of A Histidine Kinase Sensor Domain with Similarity to Periplasmic Binding Proteins

Enzymatic activity of Crystal Structure of A Histidine Kinase Sensor Domain with Similarity to Periplasmic Binding Proteins

All present enzymatic activity of Crystal Structure of A Histidine Kinase Sensor Domain with Similarity to Periplasmic Binding Proteins:
2.7.13.3;

Protein crystallography data

The structure of Crystal Structure of A Histidine Kinase Sensor Domain with Similarity to Periplasmic Binding Proteins, PDB code: 3h7m was solved by J.Cheung, M.Le-Khac, W.A.Hendrickson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	19.87 / 2.40
*Space group*	P 6₅ 2 2
*Cell size a, b, c (Å), α, β, γ (°)*	122.920, 122.920, 81.692, 90.00, 90.00, 120.00
*R / R_free (%)*	22.8 / 28.5

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of A Histidine Kinase Sensor Domain with Similarity to Periplasmic Binding Proteins (pdb code 3h7m). 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 A Histidine Kinase Sensor Domain with Similarity to Periplasmic Binding Proteins, PDB code: 3h7m:

Sodium binding site 1 out of 1 in 3h7m

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Sodium Binding Sites List in 3h7m

Sodium binding site 1 out of 1 in the Crystal Structure of A Histidine Kinase Sensor Domain with Similarity to Periplasmic Binding Proteins

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 A Histidine Kinase Sensor Domain with Similarity to Periplasmic Binding Proteins within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Na1 b:62.1 occ:1.00	OD1	A:ASP133	2.7	61.4	1.0
	O	A:ALA129	2.8	81.3	1.0
	OE1	A:GLN244	2.9	80.1	1.0
	O	A:HOH304	3.0	63.7	1.0
	O	A:ILE132	3.0	57.3	1.0
	O	A:HOH332	3.3	67.3	1.0
	CG	A:ASP133	3.7	70.7	1.0
	C	A:ALA129	3.8	80.8	1.0
	CA	A:ASP133	3.8	63.4	1.0
	C	A:ILE132	3.8	60.9	1.0
	CD	A:GLN244	4.1	81.0	1.0
	CB	A:ASP133	4.2	71.4	1.0
	N	A:ASP133	4.2	59.3	1.0
	CA	A:ALA129	4.2	75.5	1.0
	CB	A:ALA129	4.4	73.4	1.0
	OD2	A:ASP133	4.7	73.3	1.0
	O	A:HOH337	4.8	56.5	1.0
	N	A:ILE132	4.8	68.6	1.0
	NE2	A:GLN244	4.9	75.4	1.0
	N	A:ARG130	4.9	82.5	1.0
	CA	A:ILE132	5.0	60.1	1.0

Reference:

J.Cheung, M.Le-Khac, W.A.Hendrickson. Crystal Structure of A Histidine Kinase Sensor Domain with Similarity to Periplasmic Binding Proteins. Proteins V. 77 235 2009.
ISSN: ISSN 0887-3585
PubMed: 19544572
DOI: 10.1002/PROT.22485

Page generated: Sun Aug 17 15:18:20 2025

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