Chlorine in PDB 5oc5: Crystal Structure of Human Trna-Dihydrouridine(20) Synthase Dsrbd K419A-K420A Mutant

The structure of Crystal Structure of Human Trna-Dihydrouridine(20) Synthase Dsrbd K419A-K420A Mutant, PDB code: 5oc5 was solved by C.Bou-Nader, L.Pecqueur, D.Hamdane, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	36.17 / 1.89
Space group	P 41
Cell size a, b, c (Å), α, β, γ (°)	36.170, 36.170, 75.090, 90.00, 90.00, 90.00
R / Rfree (%)	16.9 / 22.6

The binding sites of Chlorine atom in the Crystal Structure of Human Trna-Dihydrouridine(20) Synthase Dsrbd K419A-K420A Mutant (pdb code 5oc5). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 2 binding sites of Chlorine where determined in the Crystal Structure of Human Trna-Dihydrouridine(20) Synthase Dsrbd K419A-K420A Mutant, PDB code: 5oc5:
Jump to Chlorine binding site number: 1; 2;

Chlorine binding site 1 out of 2 in the Crystal Structure of Human Trna-Dihydrouridine(20) Synthase Dsrbd K419A-K420A Mutant


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Crystal Structure of Human Trna-Dihydrouridine(20) Synthase Dsrbd K419A-K420A Mutant within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl504 b:43.5 occ:1.00 HH21 A:ARG361 2.4 54.0 1.0 HG A:SER418 2.5 40.5 1.0 NH2 A:ARG361 3.1 45.0 1.0 OG A:SER418 3.3 33.8 1.0 HH22 A:ARG361 3.4 54.0 1.0 HG A:LEU421 3.4 38.3 1.0 HB3 A:SER418 3.8 31.9 1.0 HE A:ARG361 3.9 51.5 1.0 HB3 A:ALA420 4.0 36.1 1.0 CB A:SER418 4.0 26.6 1.0 HD11 A:LEU421 4.1 40.6 1.0 HB2 A:SER418 4.2 31.9 1.0 CZ A:ARG361 4.2 43.7 1.0 CG A:LEU421 4.3 31.9 1.0 NE A:ARG361 4.4 42.9 1.0 HD21 A:LEU421 4.4 37.0 1.0 HD12 A:LEU421 4.5 40.6 1.0 CD1 A:LEU421 4.5 33.8 1.0 H A:LEU421 4.8 33.0 1.0 CD2 A:LEU421 4.8 30.8 1.0 CB A:ALA420 4.9 30.1 1.0 HD23 A:LEU421 5.0 37.0 1.0

Chlorine binding site 2 out of 2 in the Crystal Structure of Human Trna-Dihydrouridine(20) Synthase Dsrbd K419A-K420A Mutant


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Crystal Structure of Human Trna-Dihydrouridine(20) Synthase Dsrbd K419A-K420A Mutant within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl505 b:34.2 occ:1.00 HE2 A:TYR388 2.9 33.8 1.0 O A:HOH641 3.0 33.2 1.0 O A:HOH606 3.1 26.7 1.0 O A:HOH622 3.2 29.5 1.0 HD13 A:LEU375 3.2 45.2 1.0 HE2 A:LYS371 3.6 36.4 1.0 HE3 A:LYS371 3.8 36.4 1.0 CE2 A:TYR388 3.8 28.2 1.0 HD22 A:LEU375 4.0 53.2 1.0 HB3 A:LYS371 4.1 32.7 1.0 CD1 A:LEU375 4.1 37.7 1.0 CE A:LYS371 4.2 30.4 1.0 HB2 A:LEU375 4.2 41.0 1.0 HB2 A:PRO386 4.2 31.9 1.0 HD2 A:PRO386 4.2 31.9 1.0 HG2 A:PRO386 4.3 33.3 1.0 HD11 A:LEU375 4.5 45.2 1.0 OH A:TYR388 4.5 30.1 1.0 HD2 A:TYR388 4.5 27.5 1.0 CZ A:TYR388 4.6 24.7 1.0 HD12 A:LEU375 4.6 45.2 1.0 HZ1 A:LYS371 4.6 45.7 1.0 CD2 A:TYR388 4.6 22.9 1.0 O A:LYS371 4.7 28.0 1.0 CD2 A:LEU375 4.8 44.4 1.0 CG A:LEU375 4.9 40.6 1.0 CG A:PRO386 4.9 27.8 1.0 HG2 A:LYS371 4.9 37.3 1.0 CB A:LYS371 5.0 27.3 1.0 CB A:LEU375 5.0 34.2 1.0 CB A:PRO386 5.0 26.6 1.0 NZ A:LYS371 5.0 38.1 1.0 CD A:PRO386 5.0 26.6 1.0

C.Bou-Nader, P.Barraud, L.Pecqueur, J.Perez, C.Velours, W.Shepard, M.Fontecave, C.Tisne, D.Hamdane. Molecular Basis For Transfer Rna Recognition By the Double-Stranded Rna-Binding Domain of Human Dihydrouridine Synthase 2. Nucleic Acids Res. V. 47 3117 2019.
ISSN: ESSN 1362-4962
PubMed: 30605527
DOI: 10.1093/NAR/GKY1302