Zinc in PDB 8gw0: Crystal Structure of the Human Dihydroorotase Domain in Complex with Malic Acid

All present enzymatic activity of Crystal Structure of the Human Dihydroorotase Domain in Complex with Malic Acid:
3.5.2.3;

The structure of Crystal Structure of the Human Dihydroorotase Domain in Complex with Malic Acid, PDB code: 8gw0 was solved by P.C.Yang, H.W.Liu, H.Y.Huang, C.Y.Huang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	28.53 / 1.64
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	82.05, 158.251, 61.185, 90, 90, 90
R / Rfree (%)	17 / 19.1

The binding sites of Zinc atom in the Crystal Structure of the Human Dihydroorotase Domain in Complex with Malic Acid (pdb code 8gw0). 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 Human Dihydroorotase Domain in Complex with Malic Acid, PDB code: 8gw0:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Crystal Structure of the Human Dihydroorotase Domain in Complex with Malic Acid


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 Human Dihydroorotase Domain in Complex with Malic Acid within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1902 b:23.2 occ:1.00 O4B A:LMR1901 2.0 24.8 1.0 OD1 A:ASP1686 2.0 22.1 1.0 NE2 A:HIS1471 2.2 22.1 1.0 NE2 A:HIS1473 2.2 23.3 1.0 OQ2 A:KCX1556 2.4 19.9 1.0 H3 A:LMR1901 2.6 37.7 1.0 C4 A:LMR1901 3.0 25.7 1.0 CG A:ASP1686 3.1 27.1 1.0 CD2 A:HIS1471 3.1 22.9 1.0 CD2 A:HIS1473 3.1 23.1 1.0 CE1 A:HIS1473 3.1 22.0 1.0 CE1 A:HIS1471 3.2 23.3 1.0 CX A:KCX1556 3.2 22.5 1.0 C3 A:LMR1901 3.2 31.4 1.0 OQ1 A:KCX1556 3.4 22.2 1.0 ZN A:ZN1903 3.5 23.6 1.0 OD2 A:ASP1686 3.6 26.8 1.0 H3A A:LMR1901 3.9 37.7 1.0 O4A A:LMR1901 4.1 28.3 1.0 CG A:HIS1471 4.2 21.1 1.0 ND1 A:HIS1471 4.2 22.6 1.0 ND1 A:HIS1473 4.2 21.2 1.0 CB A:ASP1686 4.3 23.0 1.0 CG A:HIS1473 4.3 22.1 1.0 CG A:MET1503 4.3 22.6 1.0 H2 A:LMR1901 4.3 37.1 1.0 NZ A:KCX1556 4.3 21.2 1.0 C2 A:LMR1901 4.4 30.9 1.0 CD2 A:HIS1614 4.5 23.5 1.0 NE2 A:HIS1614 4.5 23.2 1.0 CA A:ASP1686 4.7 23.1 1.0 O1B A:LMR1901 4.8 23.8 1.0 OH A:TYR1558 4.8 24.1 1.0 CB A:MET1503 5.0 23.9 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of the Human Dihydroorotase Domain in Complex with Malic Acid


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 Human Dihydroorotase Domain in Complex with Malic Acid within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1903 b:23.6 occ:1.00 O4B A:LMR1901 2.1 24.8 1.0 NE2 A:HIS1614 2.2 23.2 1.0 ND1 A:HIS1590 2.2 23.9 1.0 OQ1 A:KCX1556 2.2 22.2 1.0 C4 A:LMR1901 2.7 25.7 1.0 O4A A:LMR1901 2.7 28.3 1.0 CE1 A:HIS1590 3.0 25.9 1.0 CX A:KCX1556 3.1 22.5 1.0 CE1 A:HIS1614 3.1 21.5 1.0 CD2 A:HIS1614 3.2 23.5 1.0 CG A:HIS1590 3.2 21.3 1.0 OQ2 A:KCX1556 3.3 19.9 1.0 ZN A:ZN1902 3.5 23.2 1.0 CB A:HIS1590 3.6 20.2 1.0 C3 A:LMR1901 4.1 31.4 1.0 CE1 A:HIS1471 4.1 23.3 1.0 NE2 A:HIS1590 4.1 25.7 1.0 ND1 A:HIS1614 4.2 21.6 1.0 CD2 A:HIS1590 4.2 21.6 1.0 NE2 A:HIS1471 4.3 22.1 1.0 NZ A:KCX1556 4.3 21.2 1.0 CG A:HIS1614 4.3 22.8 1.0 H3A A:LMR1901 4.3 37.7 1.0 H3 A:LMR1901 4.4 37.7 1.0 OD2 A:ASP1686 4.4 26.8 1.0 CE1 A:TYR1558 4.5 25.4 1.0 CA A:HIS1590 4.5 19.9 1.0 O A:ARG1661 4.5 28.0 1.0 OD1 A:ASP1686 4.6 22.1 1.0 CE A:KCX1556 4.8 20.4 1.0 CG A:ASP1686 4.8 27.1 1.0 CD1 A:TYR1558 4.9 23.8 1.0 CG2 A:THR1562 5.0 29.9 1.0 OG1 A:THR1562 5.0 29.8 1.0

E.S.Lin, Y.H.Huang, P.C.Yang, W.F.Peng, C.Y.Huang. Complexed Crystal Structure of the Dihydroorotase Domain of Human Cad Protein with the Anticancer Drug 5-Fluorouracil. Biomolecules V. 13 2023.
ISSN: ESSN 2218-273X
PubMed: 36671534
DOI: 10.3390/BIOM13010149