Iron in PDB 7yvz: Structure of Caenorhabditis Elegans Cisd-1/Mitoneet

The structure of Structure of Caenorhabditis Elegans Cisd-1/Mitoneet, PDB code: 7yvz was solved by K.Hasegawa, E.Hagiuda, A.T.Taguchi, W.Geldenhuys, T.Iwasaki, T.Kumasaka, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	34.35 / 1.70
Space group	P 41 21 2
Cell size a, b, c (Å), α, β, γ (°)	37.798, 37.798, 82.26, 90, 90, 90
R / Rfree (%)	16.8 / 18.9

The binding sites of Iron atom in the Structure of Caenorhabditis Elegans Cisd-1/Mitoneet (pdb code 7yvz). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 2 binding sites of Iron where determined in the Structure of Caenorhabditis Elegans Cisd-1/Mitoneet, PDB code: 7yvz:
Jump to Iron binding site number: 1; 2;

Iron binding site 1 out of 2 in the Structure of Caenorhabditis Elegans Cisd-1/Mitoneet


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Structure of Caenorhabditis Elegans Cisd-1/Mitoneet within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe401 b:22.4 occ:1.00 FE1 A:FES401 0.0 22.4 1.0 S2 A:FES401 2.2 22.4 1.0 S1 A:FES401 2.2 21.4 1.0 SG A:CYS69 2.3 23.4 1.0 SG A:CYS67 2.3 21.1 1.0 FE2 A:FES401 2.7 24.2 1.0 CB A:CYS67 3.4 21.9 1.0 CB A:CYS69 3.4 19.9 1.0 N A:CYS69 3.6 20.2 1.0 CA A:CYS67 3.7 21.1 1.0 CA A:CYS69 4.0 20.8 1.0 N A:ARG68 4.0 20.1 1.0 CB A:HIS82 4.1 24.3 1.0 C A:CYS67 4.3 19.8 1.0 ND1 A:HIS82 4.3 24.6 1.0 N A:HIS82 4.3 23.6 1.0 N A:TRP70 4.4 19.4 1.0 N A:SER72 4.5 24.7 1.0 C A:CYS69 4.5 23.6 1.0 CB A:SER72 4.5 24.5 1.0 CA A:HIS82 4.6 25.4 1.0 C A:ARG68 4.7 23.1 1.0 CG A:HIS82 4.7 26.8 1.0 N A:LYS71 4.7 25.3 1.0 SG A:CYS78 4.8 26.6 1.0 CA A:CYS78 4.8 24.9 1.0 CA A:ARG68 4.9 19.4 1.0 CA A:SER72 4.9 25.3 1.0 CB A:CYS78 5.0 27.5 1.0 N A:CYS67 5.0 24.1 1.0

Iron binding site 2 out of 2 in the Structure of Caenorhabditis Elegans Cisd-1/Mitoneet


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Structure of Caenorhabditis Elegans Cisd-1/Mitoneet within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe401 b:24.2 occ:1.00 FE2 A:FES401 0.0 24.2 1.0 ND1 A:HIS82 2.1 24.6 1.0 S1 A:FES401 2.2 21.4 1.0 S2 A:FES401 2.2 22.4 1.0 SG A:CYS78 2.4 26.6 1.0 FE1 A:FES401 2.7 22.4 1.0 CE1 A:HIS82 3.1 26.3 1.0 CG A:HIS82 3.2 26.8 1.0 CB A:CYS78 3.4 27.5 1.0 CB A:HIS82 3.5 24.3 1.0 CA A:CYS78 3.9 24.9 1.0 N A:HIS82 4.0 23.6 1.0 N A:GLY80 4.1 28.7 1.0 NE2 A:HIS82 4.2 31.1 1.0 CD A:PRO95 4.2 24.6 1.0 CD2 A:HIS82 4.3 31.9 1.0 N A:ASP79 4.3 24.2 1.0 CB A:PRO95 4.4 19.4 1.0 CA A:HIS82 4.4 25.4 1.0 CA A:GLY80 4.4 26.3 1.0 SG A:CYS69 4.4 23.4 1.0 CG A:PRO95 4.4 23.8 1.0 N A:SER81 4.5 27.3 1.0 C A:CYS78 4.6 27.9 1.0 C A:GLY80 4.6 27.9 1.0 SG A:CYS67 4.6 21.1 1.0 CA A:CYS67 4.6 21.1 1.0 N A:PRO95 4.7 19.7 1.0 CB A:CYS67 4.8 21.9 1.0 CA A:PRO95 4.9 20.5 1.0

J.R.Boos, H.N.Jandrain, E.Hagiuda, A.T.Taguchi, K.Hasegawa, B.L.Fedun, S.J.Taylor, S.M.Elad, S.E.Faber, T.Kumasaka, T.Iwasaki, W.J.Geldenhuys. Structure and Biological Evaluation of Caenorhabditis Elegans Cisd-1/Mitoneet, A Klp-17 Tail Domain Homologue, Supports Attenuation of Paraquat-Induced Oxidative Stress Through A P38 Mapk-Mediated Antioxidant Defense Response Advances in Redox Research V. 6 00048 2022.
DOI: 10.1016/J.ARRES.2022.100048