Zinc in PDB 6gcn: Truncated Ftsh From A. Aeolicus in R32

The structure of Truncated Ftsh From A. Aeolicus in R32, PDB code: 6gcn was solved by M.Uthoff, U.Baumann, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	60.59 / 2.95
Space group	H 3 2
Cell size a, b, c (Å), α, β, γ (°)	197.550, 197.550, 323.920, 90.00, 90.00, 120.00
R / Rfree (%)	21.3 / 25.6

The binding sites of Zinc atom in the Truncated Ftsh From A. Aeolicus in R32 (pdb code 6gcn). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Truncated Ftsh From A. Aeolicus in R32, PDB code: 6gcn:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in the Truncated Ftsh From A. Aeolicus in R32


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Truncated Ftsh From A. Aeolicus in R32 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn702 b:0.5 occ:1.00 HH11 A:ARG443 1.7 0.1 1.0 OD1 A:ASP496 2.0 0.5 1.0 OD2 A:ASP496 2.0 0.7 1.0 O A:HOH801 2.1 90.7 1.0 NE2 A:HIS418 2.1 85.3 1.0 CG A:ASP496 2.2 90.0 1.0 NH1 A:ARG443 2.3 0.8 1.0 HH12 A:ARG443 2.4 0.1 1.0 CE1 A:HIS418 3.0 73.6 1.0 HE1 A:HIS418 3.1 88.5 1.0 CD2 A:HIS418 3.2 71.7 1.0 HD2 A:HIS418 3.4 86.2 1.0 CZ A:ARG443 3.5 0.0 1.0 CB A:ASP496 3.6 81.9 1.0 HE A:ARG443 3.7 0.5 1.0 HB2 A:ASP496 3.8 98.4 1.0 HB3 A:ASP496 4.0 98.4 1.0 NE A:ARG443 4.0 99.5 1.0 HD2 A:HIS422 4.1 95.0 1.0 HA A:ALA493 4.1 86.4 1.0 ND1 A:HIS418 4.2 64.0 1.0 H A:ASP496 4.3 88.8 1.0 CG A:HIS418 4.3 72.8 1.0 OE2 A:GLU419 4.4 79.1 1.0 HB2 A:HIS422 4.4 80.5 1.0 CD2 A:HIS422 4.4 79.0 1.0 HA3 A:GLY476 4.5 81.4 1.0 O A:GLY492 4.6 74.8 1.0 NH2 A:ARG443 4.6 0.2 1.0 HH22 A:ARG443 4.6 0.2 1.0 CA A:ASP496 4.7 75.8 1.0 HA A:ASP496 4.9 91.1 1.0 CG A:HIS422 4.9 72.6 1.0 N A:ASP496 4.9 73.9 1.0 HD1 A:HIS418 4.9 76.9 1.0 H A:GLY476 5.0 79.0 1.0

Zinc binding site 2 out of 4 in the Truncated Ftsh From A. Aeolicus in R32


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Truncated Ftsh From A. Aeolicus in R32 within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn702 b:0.2 occ:1.00 O B:ALA704 1.9 90.0 1.0 OD2 B:ASP496 2.0 0.8 1.0 NE2 B:HIS418 2.0 96.0 0.5 NE2 B:HIS418 2.0 96.1 0.5 NE2 B:HIS422 2.1 91.6 1.0 OD1 B:ASP496 2.1 0.7 1.0 C B:ALA704 2.2 0.3 1.0 OXT B:ALA704 2.3 0.9 1.0 CG B:ASP496 2.3 97.3 1.0 CD2 B:HIS422 3.0 85.7 1.0 CE1 B:HIS418 3.0 88.3 0.5 CE1 B:HIS418 3.0 87.9 0.5 CD2 B:HIS418 3.0 92.2 0.5 CD2 B:HIS418 3.0 88.0 0.5 HD2 B:HIS422 3.1 1.0 1.0 CE1 B:HIS422 3.1 89.3 1.0 HD2 B:HIS418 3.2 0.8 0.5 HD2 B:HIS418 3.2 0.7 0.5 HE1 B:HIS418 3.2 0.1 0.5 HE1 B:HIS418 3.2 0.6 0.5 H B:ALA704 3.3 0.1 1.0 CA B:ALA704 3.3 0.7 1.0 HE1 B:HIS422 3.4 0.3 1.0 N B:ALA704 3.5 0.3 1.0 HA B:ALA704 3.7 0.2 1.0 CB B:ASP496 3.8 77.6 1.0 HB1 B:ALA703 3.9 0.4 1.0 HB2 B:ASP496 4.0 93.3 1.0 HB3 B:ASP496 4.1 93.3 1.0 ND1 B:HIS418 4.1 84.8 0.5 ND1 B:HIS418 4.1 85.2 0.5 CG B:HIS422 4.1 72.9 1.0 CG B:HIS418 4.2 85.8 0.5 CG B:HIS418 4.2 85.5 0.5 ND1 B:HIS422 4.2 72.7 1.0 OE2 B:GLU419 4.5 84.6 1.0 C B:ALA703 4.5 0.9 1.0 H B:ASP496 4.5 0.7 1.0 CB B:ALA704 4.6 0.9 1.0 HA3 B:GLY476 4.6 84.8 1.0 HB3 B:ALA704 4.6 0.2 1.0 HA B:ALA493 4.6 89.4 1.0 HB3 B:ALA703 4.6 0.4 1.0 CB B:ALA703 4.7 0.6 1.0 HB1 B:ALA704 4.8 0.2 1.0 CA B:ASP496 4.9 77.6 1.0 HA B:ASP496 4.9 93.3 1.0 HH21 B:ARG499 4.9 0.9 1.0 HD1 B:HIS418 4.9 0.9 0.5 HD1 B:HIS418 4.9 0.3 0.5 HD1 B:HIS422 5.0 87.3 1.0

Zinc binding site 3 out of 4 in the Truncated Ftsh From A. Aeolicus in R32


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Truncated Ftsh From A. Aeolicus in R32 within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn702 b:0.1 occ:1.00 OD2 C:ASP496 2.0 98.5 1.0 OD1 C:ASP496 2.0 0.7 1.0 CG C:ASP496 2.1 99.3 1.0 O C:HOH802 2.1 78.0 1.0 NE2 C:HIS418 2.1 82.6 1.0 CE1 C:HIS418 3.0 66.9 1.0 HE1 C:HIS418 3.1 80.5 1.0 CD2 C:HIS418 3.2 66.5 1.0 CB C:ASP496 3.4 80.6 1.0 HD2 C:HIS418 3.5 79.9 1.0 HB2 C:ASP496 3.5 96.9 1.0 HB3 C:ASP496 3.7 96.9 1.0 HA C:ALA493 4.0 81.6 1.0 HD2 C:HIS422 4.1 82.3 1.0 ND1 C:HIS418 4.1 56.0 1.0 H C:ASP496 4.2 90.1 1.0 HB2 C:HIS422 4.2 71.0 1.0 HA3 C:GLY476 4.3 74.6 1.0 CG C:HIS418 4.3 63.1 1.0 OE2 C:GLU419 4.3 67.7 1.0 CD2 C:HIS422 4.4 68.4 1.0 CA C:ASP496 4.6 77.3 1.0 H C:GLY476 4.7 72.6 1.0 O C:GLY492 4.7 69.6 1.0 CG C:HIS422 4.7 66.8 1.0 O C:LEU473 4.8 67.4 1.0 HA C:ASP496 4.8 93.0 1.0 N C:ASP496 4.8 75.0 1.0 HD1 C:HIS418 4.9 67.4 1.0 CB C:HIS422 5.0 59.0 1.0 CA C:ALA493 5.0 67.9 1.0

Zinc binding site 4 out of 4 in the Truncated Ftsh From A. Aeolicus in R32


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Truncated Ftsh From A. Aeolicus in R32 within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn702 b:0.7 occ:1.00 OD2 D:ASP496 2.0 0.3 1.0 NE2 D:HIS418 2.1 95.2 1.0 NE2 D:HIS422 2.1 87.8 1.0 OD1 D:ASP496 2.1 0.6 1.0 O D:HOH801 2.1 75.7 1.0 CG D:ASP496 2.3 98.7 1.0 CD2 D:HIS418 3.0 91.7 1.0 CD2 D:HIS422 3.0 87.3 1.0 CE1 D:HIS418 3.1 92.9 1.0 CE1 D:HIS422 3.1 87.2 1.0 HD2 D:HIS418 3.1 0.2 1.0 HD2 D:HIS422 3.1 0.9 1.0 HE1 D:HIS418 3.3 0.6 1.0 HE1 D:HIS422 3.3 0.7 1.0 CB D:ASP496 3.8 70.7 1.0 HB2 D:ASP496 4.0 84.9 1.0 HB3 D:ASP496 4.1 84.9 1.0 CG D:HIS418 4.2 80.3 1.0 CG D:HIS422 4.2 75.2 1.0 ND1 D:HIS418 4.2 80.9 1.0 ND1 D:HIS422 4.2 66.7 1.0 H D:ASP496 4.5 91.0 1.0 HH21 D:ARG499 4.6 0.8 1.0 OE2 D:GLU419 4.7 80.2 1.0 HA D:ALA493 4.7 85.1 1.0 CA D:ASP496 4.8 68.7 1.0 HA D:ASP496 4.9 82.5 1.0 HH22 D:ARG499 4.9 0.8 1.0 HA3 D:GLY476 4.9 86.8 1.0 HD1 D:HIS418 5.0 97.2 1.0 HD1 D:HIS422 5.0 80.1 1.0

M.Uthoff, U.Baumann. Conformational Flexibility of Pore Loop-1 Gives Insights Into Substrate Translocation By the Aaa+Protease Ftsh. J. Struct. Biol. V. 204 199 2018.
ISSN: ESSN 1095-8657
PubMed: 30118817
DOI: 10.1016/J.JSB.2018.08.009