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Sodium in PDB 3w6a: Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked Wiht 5MM [Ru(Benzene)CL2]2

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

All present enzymatic activity of Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked Wiht 5MM [Ru(Benzene)CL2]2:
3.2.1.17;

Protein crystallography data

The structure of Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked Wiht 5MM [Ru(Benzene)CL2]2, PDB code: 3w6a was solved by H.Tabe, S.Abe, T.Hikage, S.Kitagawa, T.Ueno, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 27.95 / 1.77
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 79.046, 79.046, 36.358, 90.00, 90.00, 90.00
R / Rfree (%) 19.9 / 27.2

Other elements in 3w6a:

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

Ruthenium (Ru) 2 atoms
Chlorine (Cl) 6 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked Wiht 5MM [Ru(Benzene)CL2]2 (pdb code 3w6a). 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 Wiht 5MM [Ru(Benzene)CL2]2, PDB code: 3w6a:

Sodium binding site 1 out of 1 in 3w6a

Go back to Sodium Binding Sites List in 3w6a
Sodium binding site 1 out of 1 in the Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked Wiht 5MM [Ru(Benzene)CL2]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 Wiht 5MM [Ru(Benzene)CL2]2 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na205

b:29.8
occ:1.00
 O A:CYS64 2.3 25.7 1.0
O A:HOH333 2.4 26.3 1.0
O A:ARG73 2.4 33.4 1.0
O A:SER60 2.4 28.1 1.0
O A:HOH332 2.5 28.4 1.0
OG A:SER72 2.8 27.9 1.0
CB A:SER72 3.3 29.1 1.0
C A:CYS64 3.4 21.9 1.0
C A:ARG73 3.5 33.9 1.0
C A:SER60 3.6 25.9 1.0
CA A:ASN65 3.7 25.9 1.0
N A:ASN65 4.0 23.6 1.0
N A:ARG73 4.0 30.6 1.0
CA A:SER60 4.2 23.4 1.0
C A:SER72 4.2 36.4 1.0
CB A:SER60 4.3 18.9 1.0
N A:ASN74 4.3 33.7 1.0
CA A:ARG73 4.3 32.2 1.0
N A:CYS64 4.4 23.7 1.0
CA A:SER72 4.4 31.1 1.0
N A:ASP66 4.4 23.8 1.0
CA A:CYS64 4.5 24.1 1.0
CA A:ASN74 4.5 28.1 1.0
OD1 A:ASN65 4.6 30.2 1.0
O A:ARG61 4.6 32.8 1.0
C A:ASN65 4.6 24.6 1.0
O A:HOH372 4.6 51.1 1.0
C A:ARG61 4.6 33.1 1.0
N A:ARG61 4.6 25.5 1.0
CL A:CL202 4.7 30.5 1.0
CB A:ASN65 4.7 26.8 1.0
CB A:ASN74 4.7 30.1 1.0
CB A:THR69 4.7 27.2 1.0
O A:SER72 4.8 32.9 1.0
CA A:ARG61 4.9 29.2 1.0

Reference:

T.Ueno, H.Tabe, S.Abe, T.Hikage, S.Kitagawa. Solid Artificial Metalloenzymes: Post-Engineering of Porous Protein Crystals By Organometallic Complexes To Be Published.
Page generated: Mon Oct 7 13:54:22 2024

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