Sodium in PDB 2z12: Structure of the Transformed Monoclinic Lysozyme By Controlled Dehydration

Enzymatic activity of Structure of the Transformed Monoclinic Lysozyme By Controlled Dehydration

All present enzymatic activity of Structure of the Transformed Monoclinic Lysozyme By Controlled Dehydration:
3.2.1.17;

Protein crystallography data

The structure of Structure of the Transformed Monoclinic Lysozyme By Controlled Dehydration, PDB code: 2z12 was solved by K.Harata, T.Akiba, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	25.00 / 1.15
*Space group*	P 1 2₁ 1
*Cell size a, b, c (Å), α, β, γ (°)*	25.947, 58.021, 30.580, 90.00, 110.40, 90.00
*R / R_free (%)*	16.8 / 20.5

Other elements in 2z12:

The structure of Structure of the Transformed Monoclinic Lysozyme By Controlled Dehydration also contains other interesting chemical elements:

Chlorine

(Cl)

4 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Structure of the Transformed Monoclinic Lysozyme By Controlled Dehydration (pdb code 2z12). 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 Structure of the Transformed Monoclinic Lysozyme By Controlled Dehydration, PDB code: 2z12:

Sodium binding site 1 out of 1 in 2z12

Go back to

Sodium Binding Sites List in 2z12

Sodium binding site 1 out of 1 in the Structure of the Transformed Monoclinic Lysozyme By Controlled Dehydration

Mono view

Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of the Transformed Monoclinic Lysozyme By Controlled Dehydration within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Na130 b:14.5 occ:1.00	O	A:GLN57	2.2	8.3	1.0
	O	A:HOH135	2.2	12.9	1.0
	O	A:HOH137	2.5	12.8	1.0
	O	A:HOH136	2.5	18.5	1.0
	OD2	A:ASP52	2.5	9.2	0.5
	OD2	A:ASP52	2.7	7.9	0.5
	CG	A:ASP52	3.2	8.0	0.5
	CG	A:ASP52	3.3	7.4	0.5
	C	A:GLN57	3.5	7.0	1.0
	OD1	A:ASP52	3.7	7.7	0.5
	OD1	A:ASP52	3.9	8.7	0.5
	CB	A:ASP52	4.0	8.2	0.5
	O	A:HOH146	4.0	10.3	1.0
	CB	A:GLN57	4.0	7.4	1.0
	O	A:HOH161	4.1	15.1	1.0
	CB	A:ASP52	4.1	6.6	0.5
	N	A:ASN59	4.2	9.3	1.0
	CB	A:ASN59	4.3	8.6	1.0
	O	A:ALA107	4.4	12.2	1.0
	N	A:ILE58	4.4	6.9	1.0
	CA	A:GLN57	4.4	6.9	1.0
	CA	A:ILE58	4.4	7.6	1.0
	C	A:ILE58	4.5	6.6	1.0
	O	A:HOH175	4.5	16.8	1.0
	CA	A:ASN59	4.7	7.7	1.0
	OE2	A:GLU35	4.7	11.5	1.0
	O	A:LEU56	4.7	8.4	1.0
	CD1	A:TRP108	4.7	10.0	1.0
	OE1	A:GLU35	4.9	10.9	1.0
	CA	A:ASP52	5.0	6.6	1.0
	CD	A:GLU35	5.0	10.3	1.0

Reference:

K.Harata, T.Akiba. Effect of A Sodium Ion on the Dehydration-Induced Phase Transition of Monoclinic Lysozyme Crystals. Acta Crystallogr.,Sect.D V. 63 1016 2007.
ISSN: ISSN 0907-4449
PubMed: 17704571
DOI: 10.1107/S0907444907031319

Page generated: Mon Oct 7 05:29:06 2024

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