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Sodium in PDB 4w94: Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked with 5MM [Ru(Co)3CL2]2

Enzymatic activity of Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked with 5MM [Ru(Co)3CL2]2

All present enzymatic activity of Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked with 5MM [Ru(Co)3CL2]2:
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, PDB code: 4w94 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) 30.80 / 1.55
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 79.034, 79.034, 36.920, 90.00, 90.00, 90.00
R / Rfree (%) 18.2 / 22.2

Other elements in 4w94:

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

Ruthenium (Ru) 9 atoms
Chlorine (Cl) 9 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 (pdb code 4w94). 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, PDB code: 4w94:

Sodium binding site 1 out of 1 in 4w94

Go back to Sodium Binding Sites List in 4w94
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


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 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na205

b:24.0
occ:1.00
 O A:SER60 2.3 23.6 1.0
O A:HOH383 2.3 20.7 1.0
O A:ARG73 2.4 25.7 1.0
O A:HOH382 2.4 28.1 1.0
O A:CYS64 2.4 17.8 1.0
OG A:SER72 2.6 26.6 1.0
CB A:SER72 3.3 26.1 1.0
C A:SER60 3.5 20.8 1.0
C A:ARG73 3.5 25.0 1.0
C A:CYS64 3.5 17.1 1.0
CA A:ASN65 3.9 18.7 1.0
CA A:SER60 4.0 18.2 1.0
N A:ARG73 4.0 24.7 1.0
N A:ASN65 4.1 18.0 1.0
C A:SER72 4.2 29.1 1.0
CB A:SER60 4.2 18.0 1.0
CA A:ARG73 4.3 23.2 1.0
N A:ASN74 4.4 23.9 1.0
CA A:SER72 4.4 27.5 1.0
O A:ARG61 4.5 23.4 1.0
N A:CYS64 4.5 18.4 1.0
N A:ARG61 4.5 22.2 1.0
OD1 A:ASN65 4.5 23.8 1.0
C A:ARG61 4.5 24.2 1.0
CA A:ASN74 4.6 21.7 1.0
N A:ASP66 4.6 16.3 1.0
CL A:CL204 4.6 27.4 1.0
CA A:CYS64 4.6 19.4 1.0
CB A:THR69 4.7 19.9 1.0
CB A:ASN74 4.7 22.5 1.0
O A:SER72 4.7 28.4 1.0
CA A:ARG61 4.8 23.5 1.0
CB A:ASN65 4.8 19.1 1.0
C A:ASN65 4.9 16.1 1.0
N A:TRP62 5.0 22.2 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 18:49:41 2024

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