Cadmium in PDB 7qzo: Crystal Structure of Gacs D1 Domain

All present enzymatic activity of Crystal Structure of Gacs D1 Domain:
2.7.13.3;

The structure of Crystal Structure of Gacs D1 Domain, PDB code: 7qzo was solved by F.Fadel, V.Bassim, T.Botzanowski, V.I.Francis, P.Legrand, S.L.Porter, Y.Bourne, S.Cianferani, F.Vincent, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	36.79 / 1.45
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	69.152, 73.532, 104.348, 90, 90, 90
R / Rfree (%)	13.1 / 15.4

The binding sites of Cadmium atom in the Crystal Structure of Gacs D1 Domain (pdb code 7qzo). This binding sites where shown within 5.0 Angstroms radius around Cadmium atom.
In total 5 binding sites of Cadmium where determined in the Crystal Structure of Gacs D1 Domain, PDB code: 7qzo:
Jump to Cadmium binding site number: 1; 2; 3; 4; 5;

Cadmium binding site 1 out of 5 in the Crystal Structure of Gacs D1 Domain


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 1 of Crystal Structure of Gacs D1 Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd201 b:17.7 occ:1.00 OD2 A:ASP60 2.1 22.0 1.0 O A:HOH318 2.2 24.0 1.0 OD1 A:ASP17 2.2 20.2 1.0 O A:GLN62 2.3 17.3 1.0 O A:HOH319 2.3 25.8 1.0 O A:HOH380 2.3 22.4 1.0 CG A:ASP60 3.0 19.4 1.0 CG A:ASP17 3.3 16.6 1.0 OD1 A:ASP60 3.3 24.3 1.0 C A:GLN62 3.5 14.4 1.0 OD2 A:ASP17 3.6 21.2 1.0 OD1 A:ASP16 4.0 20.8 1.0 CA A:GLN62 4.3 16.5 1.0 NZ A:LYS115 4.3 37.1 1.0 O A:HOH310 4.3 26.4 1.0 CG A:MET63 4.3 15.6 1.0 CB A:GLN62 4.3 22.2 1.0 O A:HOH379 4.3 54.6 1.0 CB A:ASP60 4.4 14.7 1.0 N A:GLN62 4.4 15.2 1.0 N A:MET63 4.5 14.1 1.0 N A:ASP17 4.6 14.2 1.0 CB A:ASP17 4.6 16.3 1.0 CA A:MET63 4.7 13.8 1.0 CG A:ASP16 4.9 16.5 1.0

Cadmium binding site 2 out of 5 in the Crystal Structure of Gacs D1 Domain


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 2 of Crystal Structure of Gacs D1 Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd202 b:20.6 occ:1.00 OE1 A:GLU52 2.2 15.8 1.0 OD1 B:ASP40 2.3 16.6 1.0 OE2 A:GLU52 2.5 17.2 1.0 O B:HOH386 2.5 13.3 1.0 OD2 B:ASP40 2.5 20.8 1.0 O B:HOH396 2.7 27.7 1.0 CD A:GLU52 2.7 14.7 1.0 CG B:ASP40 2.7 17.0 1.0 OG B:SER41 4.1 12.2 1.0 CG A:GLU52 4.2 13.1 1.0 O A:HOH366 4.2 16.4 1.0 NH2 A:ARG11 4.2 27.8 1.0 CB B:ASP40 4.3 14.2 1.0 NH1 A:ARG11 4.4 33.6 1.0 O A:HOH368 4.5 25.4 1.0 CB B:SER41 4.5 11.6 1.0 O B:HOH314 4.7 29.5 1.0 O A:HOH334 4.8 26.6 1.0 CZ A:ARG11 4.8 23.1 1.0 C B:ASP40 5.0 13.2 1.0 NE A:ARG51 5.0 13.6 1.0

Cadmium binding site 3 out of 5 in the Crystal Structure of Gacs D1 Domain


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 3 of Crystal Structure of Gacs D1 Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd203 b:20.0 occ:1.00 OD1 A:ASP40 2.4 14.5 1.0 OD2 A:ASP40 2.4 18.1 1.0 OE1 B:GLU52 2.4 15.5 1.0 O B:HOH384 2.6 24.3 1.0 CG A:ASP40 2.7 14.0 1.0 OE2 B:GLU52 3.0 18.3 1.0 CD B:GLU52 3.0 15.7 1.0 CB A:ASP40 4.2 12.6 1.0 NH1 B:ARG11 4.3 21.2 1.0 NH2 B:ARG11 4.3 19.4 1.0 O B:HOH363 4.4 16.5 1.0 OG A:SER41 4.4 12.6 1.0 CG B:GLU52 4.5 13.6 1.0 O A:HOH335 4.5 23.4 1.0 O A:HOH328 4.6 25.1 1.0 CB A:SER41 4.7 11.2 1.0 CZ B:ARG11 4.8 17.0 1.0 O A:HOH394 4.9 25.4 1.0 C A:ASP40 5.0 12.3 1.0

Cadmium binding site 4 out of 5 in the Crystal Structure of Gacs D1 Domain


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 4 of Crystal Structure of Gacs D1 Domain within 5.0Å range: probe atom residue distance (Å) B Occ B:Cd201 b:17.7 occ:1.00 O B:HOH304 2.0 34.8 1.0 OD2 B:ASP60 2.2 18.2 1.0 O B:HOH321 2.2 23.4 1.0 O B:HOH404 2.2 41.1 1.0 OD1 B:ASP17 2.3 17.7 1.0 O B:HOH405 2.3 28.4 1.0 O B:GLN62 2.3 16.7 1.0 CG B:ASP60 3.0 18.0 1.0 OD1 B:ASP60 3.2 23.1 1.0 CG B:ASP17 3.3 16.7 1.0 C B:GLN62 3.5 14.4 1.0 OD2 B:ASP17 3.7 21.7 1.0 O B:HOH368 4.0 47.7 1.0 OD1 B:ASP16 4.0 20.3 1.0 CB B:GLN62 4.2 22.4 1.0 CA B:GLN62 4.2 15.9 1.0 CG B:MET63 4.3 14.6 1.0 N B:GLN62 4.3 16.6 1.0 CB B:ASP60 4.4 15.3 1.0 O B:HOH329 4.5 46.7 1.0 N B:ASP17 4.5 13.3 1.0 N B:MET63 4.5 13.6 1.0 CB B:ASP17 4.6 16.0 1.0 CA B:MET63 4.8 13.9 1.0 CG B:ASP16 4.8 18.9 1.0 CA B:ASP17 5.0 14.0 1.0

Cadmium binding site 5 out of 5 in the Crystal Structure of Gacs D1 Domain


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 5 of Crystal Structure of Gacs D1 Domain within 5.0Å range: probe atom residue distance (Å) B Occ B:Cd202 b:22.6 occ:1.00 OD1 B:ASP111 2.2 18.6 1.0 O B:HOH391 2.2 37.7 1.0 O B:HOH334 2.4 42.3 1.0 OD2 B:ASP111 2.4 20.8 1.0 O B:HOH400 2.6 22.3 1.0 CG B:ASP111 2.6 16.8 1.0 CB B:ASP111 4.1 14.1 1.0 O B:TYR112 4.2 21.4 1.0 O B:HOH327 4.4 21.1 1.0 O B:HOH398 4.5 45.0 1.0 N B:TYR112 4.8 16.5 1.0 CA B:ASP111 4.9 13.3 1.0 CE B:LYS128 4.9 17.5 1.0

F.Fadel, V.Bassim, T.Botzanowski, V.I.Francis, P.Legrand, S.L.Porter, Y.Bourne, S.Cianferani, F.Vincent. Crystal Structure of Gacs D1 Domain To Be Published.