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Platinum in PDB 5yky: Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked with 10 Mm Rose Bengal and 10MM H2PTCL6

Enzymatic activity of Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked with 10 Mm Rose Bengal and 10MM H2PTCL6

All present enzymatic activity of Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked with 10 Mm Rose Bengal and 10MM H2PTCL6:
3.2.1.17;

Protein crystallography data

The structure of Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked with 10 Mm Rose Bengal and 10MM H2PTCL6, PDB code: 5yky was solved by H.Tabe, H.Takahashi, T.Shimoi, S.Abe, T.Ueno, Y.Yamada, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 55.48 / 1.88
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 78.458, 78.458, 36.647, 90.00, 90.00, 90.00
R / Rfree (%) 18.2 / 23.7

Other elements in 5yky:

The structure of Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked with 10 Mm Rose Bengal and 10MM H2PTCL6 also contains other interesting chemical elements:

Chlorine (Cl) 12 atoms
Sodium (Na) 1 atom

Platinum Binding Sites:

The binding sites of Platinum atom in the Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked with 10 Mm Rose Bengal and 10MM H2PTCL6 (pdb code 5yky). This binding sites where shown within 5.0 Angstroms radius around Platinum atom.
In total 2 binding sites of Platinum where determined in the Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked with 10 Mm Rose Bengal and 10MM H2PTCL6, PDB code: 5yky:
Jump to Platinum binding site number: 1; 2;

Platinum binding site 1 out of 2 in 5yky

Go back to Platinum Binding Sites List in 5yky
Platinum binding site 1 out of 2 in the Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked with 10 Mm Rose Bengal and 10MM H2PTCL6


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 1 of Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked with 10 Mm Rose Bengal and 10MM H2PTCL6 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt202

b:51.0
occ:0.30
CL A:CL213 1.9 46.6 0.3
CL A:CL214 2.0 39.2 0.3
CL A:CL212 2.1 41.4 0.3
CL A:CL215 2.1 45.5 0.3
CL A:CL211 2.5 27.9 0.3
NE2 A:HIS15 2.8 46.9 1.0
CE1 A:HIS15 3.7 46.4 1.0
CD2 A:HIS15 3.8 40.7 1.0
NH2 A:ARG14 4.4 69.2 1.0
OD1 A:ASP87 4.6 41.6 1.0
ND1 A:HIS15 4.8 47.8 1.0
CB A:ALA11 4.9 31.7 1.0
CG A:HIS15 4.9 37.9 1.0

Platinum binding site 2 out of 2 in 5yky

Go back to Platinum Binding Sites List in 5yky
Platinum binding site 2 out of 2 in the Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked with 10 Mm Rose Bengal and 10MM H2PTCL6


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 2 of Crystal Structure of Cross-Linked Tetragonal Hen Egg White Lysozyme Soaked with 10 Mm Rose Bengal and 10MM H2PTCL6 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt203

b:40.6
occ:0.40
CL A:CL208 2.0 36.6 0.4
CL A:CL207 2.0 48.1 0.4
CL A:CL210 2.1 70.3 0.4
CL A:CL205 2.1 43.1 0.4
CL A:CL209 2.3 29.7 0.4
CL A:CL206 2.4 33.5 0.4
O A:HOH324 4.7 35.5 1.0

Reference:

H.Tabe, H.Takahashi, T.Shimoi, Y.Yamada. Photocatalytic Hydrogen Evolution Systems Constructed in Cross-Linked Porous Protein Crystals Appl Catal B V. 237 1124 2018.
ISSN: ISSN 0926-3373
DOI: 10.1016/J.APCATB.2018.01.046
Page generated: Wed Dec 16 02:05:30 2020

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