Zinc in PDB 5vz1: Crystal Structure of the Apo Antibody Fragment (Fab) Raised Against C- Terminal Domain of Ebola Nucleoprotein (Ebov, Tafv, Bdbv Strains)

The structure of Crystal Structure of the Apo Antibody Fragment (Fab) Raised Against C- Terminal Domain of Ebola Nucleoprotein (Ebov, Tafv, Bdbv Strains), PDB code: 5vz1 was solved by M.J.Radwanska, U.Derewenda, A.Kossiakoff, Z.S.Derewenda, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	37.31 / 2.11
Space group	P 41 2 2
Cell size a, b, c (Å), α, β, γ (°)	74.621, 74.621, 323.695, 90.00, 90.00, 90.00
R / Rfree (%)	21.8 / 26.8

The binding sites of Zinc atom in the Crystal Structure of the Apo Antibody Fragment (Fab) Raised Against C- Terminal Domain of Ebola Nucleoprotein (Ebov, Tafv, Bdbv Strains) (pdb code 5vz1). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Crystal Structure of the Apo Antibody Fragment (Fab) Raised Against C- Terminal Domain of Ebola Nucleoprotein (Ebov, Tafv, Bdbv Strains), PDB code: 5vz1:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Crystal Structure of the Apo Antibody Fragment (Fab) Raised Against C- Terminal Domain of Ebola Nucleoprotein (Ebov, Tafv, Bdbv Strains)


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 the Apo Antibody Fragment (Fab) Raised Against C- Terminal Domain of Ebola Nucleoprotein (Ebov, Tafv, Bdbv Strains) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn301 b:0.9 occ:1.00 OD2 A:ASP168 2.3 64.1 1.0 CE1 B:HIS178 2.5 25.9 1.0 NE2 B:HIS178 3.1 35.1 1.0 CG A:ASP168 3.3 51.5 1.0 ND1 B:HIS178 3.5 29.7 1.0 OD1 A:ASP168 3.7 49.0 1.0 ND2 A:ASN139 4.2 31.8 1.0 CD2 B:HIS178 4.3 17.6 1.0 CA B:GLY176 4.3 41.0 1.0 OD1 A:ASN139 4.3 46.6 1.0 CG B:HIS178 4.5 30.2 1.0 C B:GLY176 4.6 22.7 1.0 N B:GLY176 4.6 26.5 1.0 CB A:ASP168 4.6 37.2 1.0 O A:HOH483 4.7 27.6 1.0 CG A:ASN139 4.7 24.6 1.0 O B:VAL177 4.7 25.9 1.0 O B:HOH331 4.9 28.8 1.0 N B:VAL177 4.9 21.4 1.0 O B:GLY176 5.0 21.9 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of the Apo Antibody Fragment (Fab) Raised Against C- Terminal Domain of Ebola Nucleoprotein (Ebov, Tafv, Bdbv Strains)


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 the Apo Antibody Fragment (Fab) Raised Against C- Terminal Domain of Ebola Nucleoprotein (Ebov, Tafv, Bdbv Strains) within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn301 b:29.0 occ:1.00 ND2 C:ASN138 2.1 23.5 1.0 NE2 D:HIS178 2.1 17.6 1.0 O D:HOH330 2.3 18.0 1.0 OD1 C:ASN139 2.4 20.4 1.0 O C:HOH401 2.5 31.2 1.0 CD2 D:HIS178 2.8 18.8 1.0 CG C:ASN139 3.0 50.4 1.0 ND2 C:ASN139 3.0 48.5 1.0 CG C:ASN138 3.1 17.1 1.0 OD1 C:ASN138 3.3 29.7 1.0 CE1 D:HIS178 3.3 23.6 1.0 O C:HOH419 3.8 37.7 1.0 OG C:SER175 3.8 17.3 1.0 CG D:HIS178 4.1 20.2 1.0 O D:GLY176 4.1 23.0 1.0 ND1 D:HIS178 4.3 19.7 1.0 OG1 D:THR197 4.3 27.0 1.0 CB C:ASN139 4.3 25.5 1.0 N C:ASN139 4.4 16.6 1.0 CB C:ASN138 4.4 17.0 1.0 O C:HOH505 4.5 22.6 1.0 C D:GLY176 4.7 23.0 1.0 CA D:GLY176 4.8 25.2 1.0 CA C:ASN139 4.8 22.7 1.0 CA C:ASN138 4.9 19.6 1.0 C C:ASN138 5.0 18.2 1.0

M.J.Radwanska, U.Derewenda, A.Kossiakoff, Z.S.Derewenda. Crystal Structure of the Apo Antibody Fragment (Fab) Raised Against C-Terminal Domain of Ebola Nucleoprotein (Ebov, Tafv, Bdbv Strains) To Be Published.