Zinc in PDB 6yoo: Structure of SAMM50 Lir Bound to GABARAPL1

The structure of Structure of SAMM50 Lir Bound to GABARAPL1, PDB code: 6yoo was solved by S.Mouilleron, Z.Wenxin, T.Johansen, S.Tooze, Y.P.Abudu, T.Lamark, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	40.76 / 1.06
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	43.98, 54.04, 62.07, 90, 90, 90
R / Rfree (%)	13.4 / 14.8

The structure of Structure of SAMM50 Lir Bound to GABARAPL1 also contains other interesting chemical elements:

Chlorine

(Cl)

1 atom

The binding sites of Zinc atom in the Structure of SAMM50 Lir Bound to GABARAPL1 (pdb code 6yoo). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Structure of SAMM50 Lir Bound to GABARAPL1, PDB code: 6yoo:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Structure of SAMM50 Lir Bound to GABARAPL1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of SAMM50 Lir Bound to GABARAPL1 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn203 b:15.8 occ:1.00 OE1 B:GLU25 1.9 22.8 1.0 ND1 A:HIS9 2.0 14.0 1.0 CL A:CL205 2.2 19.5 1.0 CD B:GLU25 2.7 22.9 1.0 OE2 B:GLU25 2.9 23.7 1.0 CE1 A:HIS9 2.9 15.2 1.0 HB3 A:HIS9 3.0 15.8 1.0 CG A:HIS9 3.1 13.4 1.0 HE1 A:HIS9 3.1 18.2 1.0 HA A:HIS9 3.4 15.6 1.0 CB A:HIS9 3.5 13.2 1.0 HD2 A:PRO10 3.8 16.9 1.0 CA A:HIS9 4.0 12.9 1.0 NE2 A:HIS9 4.1 15.5 1.0 CD2 A:HIS9 4.1 14.3 1.0 CG B:GLU25 4.2 25.2 1.0 O B:HOH101 4.3 17.3 1.0 HB2 A:HIS9 4.3 15.8 1.0 HB3 A:TYR13 4.4 17.9 0.5 HG3 B:GLU25 4.4 30.2 1.0 HG2 B:GLU25 4.4 30.2 1.0 O A:ASP8 4.6 14.5 1.0 CD A:PRO10 4.6 14.0 1.0 HB2 A:TYR13 4.7 17.3 0.5 HD3 A:PRO10 4.7 16.9 1.0 HB2 A:TYR13 4.7 17.9 0.5 O A:HOH317 4.7 15.9 1.0 O B:HOH102 4.8 34.9 1.0 HE2 A:HIS9 4.8 18.6 1.0 HB3 A:TYR13 4.9 17.3 0.5 HA B:GLU25 5.0 33.2 1.0 N A:HIS9 5.0 12.2 1.0

Zinc binding site 2 out of 2 in the Structure of SAMM50 Lir Bound to GABARAPL1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structure of SAMM50 Lir Bound to GABARAPL1 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn204 b:13.2 occ:1.00 OXT A:LYS117 1.9 14.2 1.0 OE2 A:GLU112 2.0 13.6 1.0 C A:LYS117 2.6 13.7 1.0 CD A:GLU112 2.6 13.0 1.0 OE1 A:GLU112 2.6 13.8 1.0 O A:LYS117 2.7 15.2 1.0 O A:LYS38 3.8 14.9 1.0 O A:HOH335 3.9 15.0 1.0 HH12 A:ARG40 3.9 20.2 1.0 CG A:GLU112 4.1 14.2 1.0 CA A:LYS117 4.1 14.3 1.0 O A:HOH340 4.1 14.4 1.0 HB2 A:LYS38 4.1 19.6 1.0 O A:HOH325 4.2 16.8 1.0 HB3 A:LYS38 4.3 19.6 1.0 O A:HOH377 4.4 15.8 1.0 HG3 A:GLU112 4.4 17.1 1.0 HH11 A:ARG40 4.4 20.2 1.0 H A:LYS117 4.4 16.6 1.0 HA A:ALA39 4.4 16.7 1.0 HG2 A:GLU112 4.4 17.1 1.0 NH1 A:ARG40 4.5 16.8 1.0 HA A:LYS117 4.6 17.2 1.0 C A:LYS38 4.6 13.8 1.0 N A:LYS117 4.6 13.8 1.0 CB A:LYS38 4.7 16.3 1.0 HB2 A:LYS117 4.9 17.2 1.0 HB3 A:LYS117 5.0 17.2 1.0 CB A:LYS117 5.0 14.3 1.0

S.Mouilleron, Z.Wenxin, T.Johansen, S.Tooze, Y.P.Abudu, T.Lamark. Structure of SAMM50 Lir Bound to GABARAPL1 To Be Published.