Zinc in PDB 7e4g: Crystal Structure of Schizorhodopsin 4

The structure of Crystal Structure of Schizorhodopsin 4, PDB code: 7e4g was solved by W.Shihoya, O.Nureki, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	49.56 / 2.10
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	106, 61.14, 98.75, 90, 99.35, 90
R / Rfree (%)	20.2 / 23.7

The binding sites of Zinc atom in the Crystal Structure of Schizorhodopsin 4 (pdb code 7e4g). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 6 binding sites of Zinc where determined in the Crystal Structure of Schizorhodopsin 4, PDB code: 7e4g:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6;

Zinc binding site 1 out of 6 in the Crystal Structure of Schizorhodopsin 4


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 Schizorhodopsin 4 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn301 b:101.7 occ:1.00 O A:HOH442 2.4 40.9 1.0 OD2 A:ASP61 3.0 38.1 1.0 CG A:ASP61 3.7 44.8 1.0 OD1 A:ASP61 3.8 49.4 1.0 O A:SER59 4.4 51.0 1.0 CB A:ASN172 4.5 31.1 1.0 CB A:SER59 4.6 53.0 1.0 OG A:SER59 4.7 46.8 1.0 O A:HOH448 4.9 65.4 1.0 C A:SER59 5.0 58.1 1.0

Zinc binding site 2 out of 6 in the Crystal Structure of Schizorhodopsin 4


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of Schizorhodopsin 4 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn302 b:109.9 occ:0.50 OD1 A:ASP115 3.1 52.8 1.0 OD2 A:ASP115 3.2 44.6 1.0 OE1 A:GLU114 3.4 56.3 1.0 CG A:ASP115 3.6 44.8 1.0 CD A:GLU114 4.4 59.7 1.0 CB A:GLU114 4.9 34.9 1.0

Zinc binding site 3 out of 6 in the Crystal Structure of Schizorhodopsin 4


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Crystal Structure of Schizorhodopsin 4 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn303 b:91.0 occ:1.00 O4 A:SO4304 2.1 73.6 1.0 O A:HOH449 2.3 68.3 1.0 CE1 A:HIS194 2.5 61.0 1.0 O1 A:SO4304 2.7 73.5 1.0 O A:HOH407 2.8 66.4 1.0 S A:SO4304 2.9 72.2 1.0 NE2 A:HIS194 3.1 59.5 1.0 ND1 A:HIS194 3.5 56.1 1.0 O2 A:SO4304 3.9 71.8 1.0 O3 A:SO4304 4.0 71.8 1.0 NZ A:LYS198 4.3 52.6 1.0 CD2 A:HIS194 4.4 46.2 1.0 CB A:ALA145 4.6 44.4 1.0 CG A:HIS194 4.6 46.8 1.0

Zinc binding site 4 out of 6 in the Crystal Structure of Schizorhodopsin 4


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Crystal Structure of Schizorhodopsin 4 within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn301 b:149.3 occ:0.50 O B:HOH426 2.3 49.7 1.0 OD2 B:ASP61 3.4 37.6 1.0 O B:HOH439 3.5 49.9 1.0 OD1 B:ASP61 3.6 48.3 1.0 CG B:ASP61 3.8 40.8 1.0 O B:SER59 4.4 51.9 1.0 CB B:ASN172 4.9 36.3 1.0

Zinc binding site 5 out of 6 in the Crystal Structure of Schizorhodopsin 4


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Crystal Structure of Schizorhodopsin 4 within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn302 b:109.7 occ:1.00 OD2 B:ASP115 3.1 56.2 1.0 OD1 B:ASP115 3.3 53.6 1.0 CG B:ASP115 3.5 51.2 1.0 O B:HOH402 3.9 50.6 1.0 OE2 B:GLU114 4.2 68.8 1.0 O B:HOH444 4.4 51.7 1.0 CD B:GLU114 4.6 62.5 1.0 CB B:GLU114 4.6 40.7 1.0 CG B:GLU114 4.9 44.7 1.0 CB B:ASP115 5.0 40.0 1.0

Zinc binding site 6 out of 6 in the Crystal Structure of Schizorhodopsin 4


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Crystal Structure of Schizorhodopsin 4 within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn301 b:106.5 occ:1.00 O C:HOH445 2.4 51.6 1.0 O C:HOH406 2.7 76.2 1.0 CE1 C:HIS194 3.1 63.1 1.0 ND1 C:HIS194 3.5 62.0 1.0 C18 C:OLC313 3.8 83.1 1.0 O3 C:SO4302 4.0 67.5 1.0 CB C:ALA145 4.0 74.2 1.0 O2 C:SO4302 4.1 80.2 1.0 NE2 C:HIS194 4.1 66.1 1.0 O1 C:SO4302 4.1 69.8 1.0 S C:SO4302 4.3 74.0 1.0 CG C:HIS194 4.7 51.1 1.0 C15 C:OLC313 5.0 78.1 1.0

A.Higuchi, W.Shihoya, M.Konno, T.Ikuta, H.Kandori, K.Inoue, O.Nureki. Crystal Structure of Schizorhodopsin Reveals Mechanism of Inward Proton Pumping To Be Published.