Palladium in PDB 5cse: Streptavidin-S112Y-K121E Complexed with Palladium-Containing Biotin Ligand

The structure of Streptavidin-S112Y-K121E Complexed with Palladium-Containing Biotin Ligand, PDB code: 5cse was solved by A.D.Finke, L.Vera, M.Marsh, A.Chatterjee, T.R.Ward, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.62 / 1.79
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	81.368, 81.460, 90.811, 90.00, 90.00, 90.00
R / Rfree (%)	22.3 / 25.6

The structure of Streptavidin-S112Y-K121E Complexed with Palladium-Containing Biotin Ligand also contains other interesting chemical elements:

Chlorine

(Cl)

4 atoms

The binding sites of Palladium atom in the Streptavidin-S112Y-K121E Complexed with Palladium-Containing Biotin Ligand (pdb code 5cse). This binding sites where shown within 5.0 Angstroms radius around Palladium atom.
In total 2 binding sites of Palladium where determined in the Streptavidin-S112Y-K121E Complexed with Palladium-Containing Biotin Ligand, PDB code: 5cse:
Jump to Palladium binding site number: 1; 2;

Palladium binding site 1 out of 2 in the Streptavidin-S112Y-K121E Complexed with Palladium-Containing Biotin Ligand


Mono view


Stereo pair view

A full contact list of Palladium with other atoms in the Pd binding site number 1 of Streptavidin-S112Y-K121E Complexed with Palladium-Containing Biotin Ligand within 5.0Å range: probe atom residue distance (Å) B Occ A:Pd201 b:53.9 occ:1.00 PD A:SVP201 0.0 53.9 1.0 P11 A:SVP201 2.3 49.0 1.0 CL A:SVP201 2.4 0.6 1.0 C24 A:SVP201 3.1 62.0 1.0 C23 A:SVP201 3.2 44.5 1.0 C10 A:SVP201 3.4 31.8 1.0 C27 A:SVP201 3.5 48.3 1.0 C09 A:SVP201 3.5 32.8 1.0 C26 A:SVP201 3.8 48.0 1.0 C30 A:SVP201 3.9 50.2 1.0 C29 A:SVP201 3.9 64.4 1.0 C25 A:SVP201 4.6 54.8 1.0 C28 A:SVP201 4.9 40.0 1.0 N08 A:SVP201 5.0 30.4 1.0

Palladium binding site 2 out of 2 in the Streptavidin-S112Y-K121E Complexed with Palladium-Containing Biotin Ligand


Mono view


Stereo pair view

A full contact list of Palladium with other atoms in the Pd binding site number 2 of Streptavidin-S112Y-K121E Complexed with Palladium-Containing Biotin Ligand within 5.0Å range: probe atom residue distance (Å) B Occ B:Pd201 b:53.4 occ:1.00 PD B:SVP201 0.0 53.4 1.0 P11 B:SVP201 2.3 65.3 1.0 CL B:SVP201 2.4 81.0 1.0 C23 B:SVP201 3.3 51.2 1.0 C24 B:SVP201 3.3 59.9 1.0 C27 B:SVP201 3.5 57.8 1.0 C10 B:SVP201 3.5 33.4 1.0 C28 B:SVP201 3.5 41.5 1.0 C09 B:SVP201 3.6 33.9 1.0 C26 B:SVP201 3.9 53.2 1.0 C30 B:SVP201 4.0 39.1 1.0 C25 B:SVP201 4.7 46.3 1.0 C29 B:SVP201 4.9 54.2 1.0

A.Chatterjee, H.Mallin, J.Klehr, J.Vallapurackal, A.D.Finke, L.Vera, M.Marsh, T.R.Ward. An Enantioselective Artificial Suzukiase Based on the Biotin-Streptavidin Technology. Chem Sci V. 7 673 2016.
ISSN: ISSN 2041-6520
PubMed: 29896353
DOI: 10.1039/C5SC03116H