Zinc in PDB 4qzi: Mouse Tdt, F401A Mutant, in Complex with A Dsb Substrate and ZN2+

All present enzymatic activity of Mouse Tdt, F401A Mutant, in Complex with A Dsb Substrate and ZN2+:
2.7.7.31;

The structure of Mouse Tdt, F401A Mutant, in Complex with A Dsb Substrate and ZN2+, PDB code: 4qzi was solved by J.Gouge, M.Delarue, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	22.42 / 2.65
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	57.700, 71.523, 113.035, 90.00, 94.17, 90.00
R / Rfree (%)	18.5 / 20.3

The structure of Mouse Tdt, F401A Mutant, in Complex with A Dsb Substrate and ZN2+ also contains other interesting chemical elements:

Magnesium	(Mg)	1 atom
Sodium	(Na)	1 atom

The binding sites of Zinc atom in the Mouse Tdt, F401A Mutant, in Complex with A Dsb Substrate and ZN2+ (pdb code 4qzi). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Mouse Tdt, F401A Mutant, in Complex with A Dsb Substrate and ZN2+, PDB code: 4qzi:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Mouse Tdt, F401A Mutant, in Complex with A Dsb Substrate and ZN2+


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Mouse Tdt, F401A Mutant, in Complex with A Dsb Substrate and ZN2+ within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn601 b:58.4 occ:1.00 OD2 A:ASP343 1.9 63.2 1.0 OD1 A:ASP345 1.9 69.0 1.0 OP1 U:DC6 2.2 55.9 1.0 OD2 A:ASP434 2.2 62.3 1.0 CG A:ASP345 2.5 60.8 1.0 CG A:ASP343 2.6 60.6 1.0 OD2 A:ASP345 2.6 59.8 1.0 OD1 A:ASP343 2.7 60.8 1.0 O3' U:DA5 2.8 56.4 1.0 P U:DC6 3.1 54.8 1.0 CG A:ASP434 3.3 64.0 1.0 MG A:MG603 3.5 62.3 1.0 CB A:ASP434 3.9 54.4 1.0 CB A:ASP345 4.0 47.5 1.0 CB A:ASP343 4.0 54.5 1.0 C3' U:DA5 4.1 59.1 1.0 C5' U:DC6 4.1 52.8 1.0 O5' U:DC6 4.1 53.9 1.0 CE1 A:HIS342 4.2 66.8 1.0 OP2 U:DC6 4.2 54.1 1.0 OD1 A:ASP434 4.3 68.2 1.0 C4' U:DA5 4.3 60.1 1.0 NE2 A:HIS342 4.5 67.3 1.0 C5' U:DA5 4.5 59.1 1.0 CZ3 A:TRP450 4.7 53.6 1.0 CA A:ASP345 4.7 47.6 1.0 N A:ASP345 4.9 46.2 1.0 NH2 A:ARG432 4.9 45.0 1.0 OP1 U:DA5 4.9 58.7 1.0 O2B A:DCT605 5.0 0.3 1.0

Zinc binding site 2 out of 2 in the Mouse Tdt, F401A Mutant, in Complex with A Dsb Substrate and ZN2+


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Mouse Tdt, F401A Mutant, in Complex with A Dsb Substrate and ZN2+ within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn602 b:0.2 occ:1.00 OD2 A:ASP473 2.1 90.2 1.0 ND1 A:HIS475 2.5 75.3 1.0 CG A:ASP473 3.1 74.7 1.0 CG A:HIS475 3.4 72.6 1.0 CE1 A:HIS475 3.4 75.1 1.0 OD1 A:ASP473 3.5 75.6 1.0 CB A:HIS475 3.7 67.7 1.0 CB A:ASP473 4.3 57.1 1.0 NE2 A:HIS475 4.5 75.7 1.0 CD2 A:HIS475 4.5 75.9 1.0 O A:HOH724 4.7 52.0 1.0 CA A:HIS475 4.7 64.2 1.0 N A:HIS475 4.7 61.8 1.0 N A:ALA476 4.9 61.8 1.0

J.Gouge, S.Rosario, F.Romain, F.Poitevin, P.Beguin, M.Delarue. Structural Basis For A Novel Mechanism of Dna Bridging and Alignment in Eukaryotic Dsb Dna Repair. Embo J. V. 34 1126 2015.
ISSN: ISSN 0261-4189
PubMed: 25762590
DOI: 10.15252/EMBJ.201489643