Sodium in PDB 4w96: Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked with 5MM [Ru(Co)3CL2]2 Followed By the Reaction in Deoxy- Myoglobin Solution

Enzymatic activity of Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked with 5MM [Ru(Co)3CL2]2 Followed By the Reaction in Deoxy- Myoglobin Solution

All present enzymatic activity of Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked with 5MM [Ru(Co)3CL2]2 Followed By the Reaction in Deoxy- Myoglobin Solution:
3.2.1.17;

Protein crystallography data

The structure of Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked with 5MM [Ru(Co)3CL2]2 Followed By the Reaction in Deoxy- Myoglobin Solution, PDB code: 4w96 was solved by H.Tabe, K.Fujita, S.Abe, M.Tsujimoto, T.Kuchimaru, S.Kizaka-Kondo, M.Takano, S.Kitagawa, T.Ueno, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	30.84 / 1.50
*Space group*	P 4₃ 2₁ 2
*Cell size a, b, c (Å), α, β, γ (°)*	79.011, 79.011, 36.994, 90.00, 90.00, 90.00
*R / R_free (%)*	19.5 / 22.7

Other elements in 4w96:

The structure of Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked with 5MM [Ru(Co)3CL2]2 Followed By the Reaction in Deoxy- Myoglobin Solution also contains other interesting chemical elements:

Ruthenium	(Ru)	9 atoms
Chlorine	(Cl)	8 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked with 5MM [Ru(Co)3CL2]2 Followed By the Reaction in Deoxy- Myoglobin Solution (pdb code 4w96). 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 Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked with 5MM [Ru(Co)3CL2]2 Followed By the Reaction in Deoxy- Myoglobin Solution, PDB code: 4w96:

Sodium binding site 1 out of 1 in 4w96

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Sodium Binding Sites List in 4w96

Sodium binding site 1 out of 1 in the Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked with 5MM [Ru(Co)3CL2]2 Followed By the Reaction in Deoxy- Myoglobin Solution

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 Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked with 5MM [Ru(Co)3CL2]2 Followed By the Reaction in Deoxy- Myoglobin Solution within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Na206 b:21.9 occ:1.00	O	A:ARG73	2.3	23.0	1.0
	O	A:SER60	2.3	19.7	1.0
	O	A:HOH375	2.4	18.7	1.0
	O	A:CYS64	2.4	16.5	1.0
	O	A:HOH376	2.4	25.4	1.0
	OG	A:SER72	2.5	24.4	1.0
	CB	A:SER72	3.3	24.5	1.0
	C	A:CYS64	3.4	15.6	1.0
	C	A:ARG73	3.5	22.2	1.0
	C	A:SER60	3.5	19.0	1.0
	CA	A:ASN65	3.9	17.4	1.0
	N	A:ARG73	4.0	23.7	1.0
	CA	A:SER60	4.0	16.7	1.0
	N	A:ASN65	4.1	16.6	1.0
	C	A:SER72	4.2	25.3	1.0
	CB	A:SER60	4.3	17.1	1.0
	CA	A:ARG73	4.3	23.0	1.0
	CA	A:SER72	4.3	23.8	1.0
	N	A:ASN74	4.4	22.3	1.0
	N	A:CYS64	4.5	16.7	1.0
	O	A:ARG61	4.5	22.1	1.0
	C	A:ARG61	4.5	22.2	1.0
	CA	A:ASN74	4.5	20.4	1.0
	N	A:ARG61	4.6	19.2	1.0
	CA	A:CYS64	4.6	16.7	1.0
	N	A:ASP66	4.6	16.1	1.0
	OD1	A:ASN65	4.6	21.7	1.0
	CB	A:ASN74	4.7	20.3	1.0
	CL	A:CL205	4.7	24.4	1.0
	CB	A:THR69	4.7	19.0	1.0
	O	A:SER72	4.8	24.4	1.0
	CA	A:ARG61	4.8	20.7	1.0
	CB	A:ASN65	4.8	18.3	1.0
	C	A:ASN65	4.8	15.7	1.0
	N	A:TRP62	4.9	20.8	1.0

Reference:

H.Tabe, K.Fujita, S.Abe, M.Tsujimoto, T.Kuchimaru, S.Kizaka-Kondoh, M.Takano, S.Kitagawa, T.Ueno. Preparation of A Cross-Linked Porous Protein Crystal Containing Ru Carbonyl Complexes As A Co-Releasing Extracellular Scaffold Inorg.Chem. V. 54 215 2015.
ISSN: ISSN 0020-1669
PubMed: 25494847
DOI: 10.1021/IC502159X

Page generated: Mon Oct 7 18:49:56 2024

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