Zinc in PDB 7fdy: Structure of OMPF1H

The structure of Structure of OMPF1H, PDB code: 7fdy was solved by W.J.Jeong, W.J.Song, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.13 / 3.10
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	128.6, 140.39, 110.86, 90, 120.01, 90
R / Rfree (%)	26.9 / 29.5

The binding sites of Zinc atom in the Structure of OMPF1H (pdb code 7fdy). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the Structure of OMPF1H, PDB code: 7fdy:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in the Structure of OMPF1H


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of OMPF1H within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn401 b:75.6 occ:1.00 ND1 A:HIS132 2.0 73.3 1.0 ND1 A:HIS82 2.1 68.5 1.0 OE2 C:GLU71 2.3 69.6 1.0 O A:HOH501 2.4 53.0 1.0 CE1 A:HIS82 2.6 78.0 1.0 CE1 A:HIS132 2.8 74.7 1.0 CD C:GLU71 3.0 75.4 1.0 CG A:HIS82 3.0 69.8 1.0 OE1 C:GLU71 3.0 75.5 1.0 CG A:HIS132 3.1 69.7 1.0 NE2 A:HIS82 3.6 72.9 1.0 CB A:HIS82 3.7 60.7 1.0 CB A:HIS132 3.7 65.6 1.0 CD2 A:HIS82 3.8 77.7 1.0 NE2 A:HIS132 3.9 71.8 1.0 CA A:HIS82 4.0 58.3 1.0 CD2 A:HIS132 4.1 74.6 1.0 CG C:GLU71 4.4 77.6 1.0 CB A:SER125 4.5 78.2 1.0 O A:HIS82 4.6 61.4 1.0 C A:HIS82 4.8 59.6 1.0 NH2 A:ARG100 4.8 79.6 1.0

Zinc binding site 2 out of 3 in the Structure of OMPF1H


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structure of OMPF1H within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn401 b:87.5 occ:1.00 ND1 B:HIS132 2.1 86.6 1.0 ND1 B:HIS82 2.1 90.7 1.0 OE2 A:GLU71 2.3 87.9 1.0 OE1 A:GLU71 2.4 89.8 1.0 O B:HOH501 2.5 68.1 1.0 CE1 B:HIS82 2.7 86.0 1.0 CD A:GLU71 2.7 93.2 1.0 CG B:HIS132 2.9 86.4 1.0 CB B:HIS132 3.1 77.2 1.0 CE1 B:HIS132 3.2 85.1 1.0 CG B:HIS82 3.3 76.5 1.0 NE2 B:HIS82 3.9 83.5 1.0 CB B:HIS82 4.0 63.8 1.0 CD2 B:HIS132 4.1 83.0 1.0 CA B:HIS82 4.2 71.1 1.0 NE2 B:HIS132 4.2 82.5 1.0 CG A:GLU71 4.2 85.0 1.0 CD2 B:HIS82 4.2 81.1 1.0 CB B:SER125 4.5 85.1 1.0 CA B:HIS132 4.5 75.6 1.0 NH2 B:ARG100 4.5 75.2 1.0 O B:HIS82 4.5 78.5 1.0 C B:HIS82 4.8 72.6 1.0 N B:HIS132 4.8 77.2 1.0

Zinc binding site 3 out of 3 in the Structure of OMPF1H


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Structure of OMPF1H within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn401 b:83.5 occ:1.00 ND1 C:HIS82 2.2 71.4 1.0 ND1 C:HIS132 2.2 83.5 1.0 OE2 B:GLU71 2.4 85.9 1.0 O B:HOH502 2.5 54.8 1.0 CE1 C:HIS82 2.8 78.6 1.0 CG C:HIS132 3.1 86.1 1.0 CD B:GLU71 3.1 85.7 1.0 OE1 B:GLU71 3.2 79.5 1.0 CE1 C:HIS132 3.3 84.5 1.0 CB C:HIS132 3.3 84.4 1.0 CG C:HIS82 3.4 74.8 1.0 NE2 C:HIS82 4.0 81.3 1.0 CB C:HIS82 4.1 74.2 1.0 CD2 C:HIS132 4.3 88.6 1.0 NH2 C:ARG100 4.3 78.4 1.0 NE2 C:HIS132 4.3 88.8 1.0 CA C:HIS82 4.4 76.6 1.0 CD2 C:HIS82 4.4 74.6 1.0 CB C:SER125 4.4 94.6 1.0 CG B:GLU71 4.5 87.8 1.0 NH1 C:ARG100 4.6 82.1 1.0 OG C:SER125 4.7 96.3 1.0 CA C:HIS132 4.7 85.3 1.0 O C:HIS82 4.9 78.0 1.0 CZ C:ARG100 4.9 87.3 1.0

W.J.Jeong, W.J.Song. Structure of OMPF1H To Be Published.