Zinc in PDB 6q1d: Holo Yfea Reconstituted By Zinc Soaking

The structure of Holo Yfea Reconstituted By Zinc Soaking, PDB code: 6q1d was solved by C.D.Radka, S.L.Labiuk, L.J.Delucas, S.G.Aller, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	46.60 / 1.79
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	39.864, 50.922, 115.536, 90.00, 90.00, 90.00
R / Rfree (%)	18.4 / 21.9

The binding sites of Zinc atom in the Holo Yfea Reconstituted By Zinc Soaking (pdb code 6q1d). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total only one binding site of Zinc was determined in the Holo Yfea Reconstituted By Zinc Soaking, PDB code: 6q1d:

Zinc binding site 1 out of 1 in the Holo Yfea Reconstituted By Zinc Soaking


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Holo Yfea Reconstituted By Zinc Soaking within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn401 b:27.2 occ:0.42 NE2 A:HIS141 2.1 21.4 0.5 NE2 A:HIS76 2.1 22.8 0.5 OE1 A:GLU207 2.2 21.3 0.5 OD2 A:ASP282 2.2 22.5 0.5 OD1 A:ASP282 2.6 21.6 0.5 OE2 A:GLU207 2.7 24.6 0.5 CD A:GLU207 2.7 24.7 0.5 CG A:ASP282 2.7 21.3 0.5 CE1 A:HIS76 3.0 25.7 0.5 CE1 A:HIS141 3.1 22.0 0.5 CD2 A:HIS141 3.1 21.2 0.5 CD2 A:HIS76 3.2 26.9 0.5 ND2 A:ASN228 3.9 23.3 0.5 ND1 A:HIS76 4.1 23.0 0.5 ND1 A:HIS141 4.2 20.6 0.5 CG A:HIS141 4.2 20.0 0.5 CG A:GLU207 4.2 22.1 0.5 CG A:HIS76 4.3 26.5 0.5 CG A:ASN228 4.3 24.9 0.5 CB A:ASP282 4.3 19.4 0.5 CB A:ALA209 4.3 24.1 0.5 O A:HOH552 4.3 28.1 0.5 O A:HOH531 4.6 26.3 0.5 OD1 A:ASN228 4.7 25.1 0.5 CB A:ASN228 4.8 25.1 0.5 CD1 A:LEU101 4.9 20.3 0.5

C.D.Radka, S.L.Labiuk, L.J.Delucas, S.G.Aller. Structures of the Substrate-Binding Protein Yfea in Apo and Zinc-Reconstituted Holo Forms. Acta Crystallogr D Struct V. 75 831 2019BIOL.
ISSN: ISSN 2059-7983
PubMed: 31478906
DOI: 10.1107/S2059798319010866