Zinc in PDB 7ygv: Crystal Structure of the CA2+-Bound EFHD1/Swiprosin-2

The structure of Crystal Structure of the CA2+-Bound EFHD1/Swiprosin-2, PDB code: 7ygv was solved by S.A.Mun, J.Park, J.Y.Kang, T.Park, M.Jin, J.Ynag, S.H.Eom, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	31.72 / 2.80
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	44.251, 47.907, 63.434, 90, 90, 90
R / Rfree (%)	19.5 / 25.2

The structure of Crystal Structure of the CA2+-Bound EFHD1/Swiprosin-2 also contains other interesting chemical elements:

Calcium

(Ca)

2 atoms

The binding sites of Zinc atom in the Crystal Structure of the CA2+-Bound EFHD1/Swiprosin-2 (pdb code 7ygv). 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 Crystal Structure of the CA2+-Bound EFHD1/Swiprosin-2, PDB code: 7ygv:

Zinc binding site 1 out of 1 in the Crystal Structure of the CA2+-Bound EFHD1/Swiprosin-2


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of the CA2+-Bound EFHD1/Swiprosin-2 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn204 b:46.6 occ:1.00 NE2 A:HIS129 2.2 33.6 1.0 NZ A:LYS133 2.3 36.9 1.0 CE A:LYS133 2.6 32.8 1.0 CE1 A:HIS129 3.1 32.4 1.0 CD2 A:HIS129 3.3 31.2 1.0 CD A:LYS133 3.9 29.5 1.0 O A:HOH314 4.3 38.0 1.0 ND1 A:HIS129 4.3 32.7 1.0 CG A:HIS129 4.4 29.8 1.0 CG A:LYS133 4.6 32.8 1.0 CD2 A:LEU130 5.0 30.2 1.0

S.A.Mun, J.Park, J.Y.Kang, T.Park, M.Jin, J.Yang, S.H.Eom. Structural and Biochemical Insights Into Zn 2+ -Bound Ef-Hand Proteins, EFHD1 and EFHD2. Iucrj V. 10 233 2023.
ISSN: ESSN 2052-2525
PubMed: 36862489
DOI: 10.1107/S2052252523001501