Zinc in PDB 4wni: Crystal Structure of the T229K Mutant of Human Gapdh at 2.3 Angstroems Resolution

All present enzymatic activity of Crystal Structure of the T229K Mutant of Human Gapdh at 2.3 Angstroems Resolution:
1.2.1.12;

The structure of Crystal Structure of the T229K Mutant of Human Gapdh at 2.3 Angstroems Resolution, PDB code: 4wni was solved by E.D.Garcin, M.R.White, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	49.50 / 2.30
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	81.363, 133.095, 147.768, 90.00, 90.00, 90.00
R / Rfree (%)	16.9 / 19.8

The binding sites of Zinc atom in the Crystal Structure of the T229K Mutant of Human Gapdh at 2.3 Angstroems Resolution (pdb code 4wni). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the Crystal Structure of the T229K Mutant of Human Gapdh at 2.3 Angstroems Resolution, PDB code: 4wni:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in the Crystal Structure of the T229K Mutant of Human Gapdh at 2.3 Angstroems Resolution


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 T229K Mutant of Human Gapdh at 2.3 Angstroems Resolution within 5.0Å range: probe atom residue distance (Å) B Occ O:Zn402 b:25.6 occ:1.00 ND1 O:HIS330 2.1 22.3 1.0 O O:HOH509 2.2 20.7 1.0 O O:HOH504 2.2 23.0 1.0 CE1 O:HIS330 3.0 21.6 1.0 HE1 O:HIS330 3.0 25.9 1.0 CG O:HIS330 3.3 22.8 1.0 HB2 O:HIS330 3.3 26.3 1.0 HA O:HIS330 3.5 24.5 1.0 CB O:HIS330 3.7 21.9 1.0 O O:HOH527 4.0 32.5 1.0 CA O:HIS330 4.1 20.4 1.0 NE2 O:HIS330 4.1 21.2 1.0 OG O:SER333 4.2 29.0 1.0 HD2 O:HIS137 4.2 27.2 1.0 HG O:SER333 4.3 34.8 1.0 OE1 O:GLU138 4.3 38.5 1.0 CD2 O:HIS330 4.3 20.6 1.0 NE2 O:HIS137 4.6 22.1 1.0 HB3 O:HIS330 4.6 26.3 1.0 CD2 O:HIS137 4.7 22.7 1.0 HB3 O:SER333 4.7 30.1 1.0 HE1 O:MET133 4.9 34.3 1.0 O O:HIS330 4.9 24.2 1.0 CB O:SER333 5.0 25.1 1.0 C O:HIS330 5.0 22.3 1.0

Zinc binding site 2 out of 3 in the Crystal Structure of the T229K Mutant of Human Gapdh at 2.3 Angstroems Resolution


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 T229K Mutant of Human Gapdh at 2.3 Angstroems Resolution within 5.0Å range: probe atom residue distance (Å) B Occ O:Zn403 b:38.4 occ:1.00 OE1 O:GLU63 2.0 37.8 1.0 CD O:GLU63 2.8 35.6 1.0 OE2 O:GLU63 2.9 33.6 1.0 HZ3 O:LYS61 3.7 59.5 1.0 HZ1 O:LYS61 4.2 59.5 1.0 CG O:GLU63 4.2 31.8 1.0 NZ O:LYS61 4.3 49.6 1.0 HG3 O:GLU63 4.5 38.1 1.0 HG2 O:GLU63 4.5 38.1 1.0 HZ2 O:LYS61 4.7 59.5 1.0

Zinc binding site 3 out of 3 in the Crystal Structure of the T229K Mutant of Human Gapdh at 2.3 Angstroems Resolution


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 the T229K Mutant of Human Gapdh at 2.3 Angstroems Resolution within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn402 b:32.9 occ:1.00 OE2 B:GLU106 1.9 35.4 1.0 OD2 B:ASP127 2.1 28.0 1.0 CD B:GLU106 2.6 34.7 1.0 OE1 B:GLU106 2.7 35.8 1.0 CG B:ASP127 3.1 29.6 1.0 HB B:THR104 3.3 42.6 1.0 HB3 B:ASP127 3.7 31.7 1.0 H B:GLU106 3.8 36.6 1.0 H B:MET105 3.9 33.9 1.0 OD1 B:ASP127 3.9 29.5 1.0 CB B:ASP127 4.0 26.4 1.0 HB2 B:MET105 4.1 32.9 1.0 CG B:GLU106 4.1 37.6 1.0 HB2 B:ASP127 4.2 31.7 1.0 CB B:THR104 4.3 35.5 1.0 HG3 B:GLU106 4.3 45.1 1.0 HB2 B:GLU106 4.5 39.2 1.0 N B:MET105 4.5 28.2 1.0 N B:GLU106 4.6 30.5 1.0 HG2 B:GLU106 4.6 45.1 1.0 HG21 B:THR104 4.6 42.1 1.0 HG22 B:THR104 4.7 42.1 1.0 CG2 B:THR104 4.8 35.1 1.0 CB B:GLU106 4.8 32.7 1.0 HG1 B:THR104 4.9 43.4 1.0 HA B:THR104 5.0 34.3 1.0 CB B:MET105 5.0 27.4 1.0

M.R.White, M.M.Khan, D.Deredge, C.R.Ross, R.Quintyn, B.E.Zucconi, V.H.Wysocki, P.L.Wintrode, G.M.Wilson, E.D.Garcin. A Dimer Interface Mutation in Glyceraldehyde 3-Phosphate Dehydrogenase Regulates Its Binding to Au-Rich Rna J.Biol.Chem. 2014.
ISSN: ESSN 1083-351X