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Sodium in PDB 4j7v: Crystal Structure of Cross-Linked Hen Egg White Lysozyme Soaked with 5MM [Ru(Benzene)CL2]2

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

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

Protein crystallography data

The structure of Crystal Structure of Cross-Linked Hen Egg White Lysozyme Soaked with 5MM [Ru(Benzene)CL2]2, PDB code: 4j7v 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) 25.94 / 1.54
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 30.194, 55.572, 72.418, 90.00, 90.00, 90.00
R / Rfree (%) 19.3 / 23.5

Other elements in 4j7v:

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

Ruthenium (Ru) 1 atom
Chlorine (Cl) 7 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of Cross-Linked Hen Egg White Lysozyme Soaked with 5MM [Ru(Benzene)CL2]2 (pdb code 4j7v). 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 Hen Egg White Lysozyme Soaked with 5MM [Ru(Benzene)CL2]2, PDB code: 4j7v:

Sodium binding site 1 out of 1 in 4j7v

Go back to Sodium Binding Sites List in 4j7v
Sodium binding site 1 out of 1 in the Crystal Structure of Cross-Linked Hen Egg White Lysozyme Soaked with 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 Hen Egg White Lysozyme Soaked with 5MM [Ru(Benzene)CL2]2 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na206

b:27.4
occ:1.00
 O A:ARG73 2.3 28.3 1.0
O A:HOH327 2.3 26.6 1.0
O A:SER60 2.3 22.5 1.0
O A:HOH328 2.4 31.5 1.0
O A:CYS64 2.5 21.4 1.0
OG A:SER72 2.5 32.9 1.0
CB A:SER72 3.1 37.0 1.0
C A:ARG73 3.4 28.1 1.0
C A:SER60 3.5 19.7 1.0
C A:CYS64 3.6 21.8 1.0
CA A:ASN65 3.8 21.9 1.0
N A:ARG73 3.8 32.4 1.0
C A:SER72 4.0 36.6 1.0
N A:ASN65 4.1 21.5 1.0
CA A:SER60 4.1 18.7 1.0
CA A:SER72 4.2 37.9 1.0
CB A:SER60 4.3 19.3 1.0
CA A:ARG73 4.3 29.7 1.0
O A:ARG61 4.3 27.1 1.0
C A:ARG61 4.3 23.1 1.0
N A:ASN74 4.4 26.7 1.0
N A:ARG61 4.5 22.4 1.0
CA A:ARG61 4.5 24.5 1.0
N A:CYS64 4.6 20.6 1.0
OD1 A:ASN65 4.6 34.6 1.0
O A:SER72 4.6 39.2 1.0
CA A:ASN74 4.6 24.3 1.0
CL A:CL205 4.6 41.1 1.0
CB A:THR69 4.6 29.4 1.0
N A:ASP66 4.6 23.0 1.0
CB A:ASN65 4.7 24.7 1.0
CA A:CYS64 4.7 18.8 1.0
CB A:ASN74 4.8 24.6 1.0
C A:ASN65 4.8 21.8 1.0
N A:TRP62 4.8 21.9 1.0
O A:HOH358 4.9 45.5 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 16:13:23 2024

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