1UWZ

Bacillus subtilis cytidine deaminase with an Arg56 - Ala substitution

1UWZ の概要

• エントリーDOI: 10.2210/pdb1uwz/pdb
• 関連するPDBエントリー: 1JTK
• 分子名称: CYTIDINE DEAMINASE, TETRAHYDRODEOXYURIDINE, ZINC ION, ... (4 entities in total)
• 機能のキーワード: cytidine deaminase, cdd, tetramer, zinc binding, pyrimidine metabolism, salvage, hydrolase
• 由来する生物種: BACILLUS SUBTILIS
• タンパク質・核酸の鎖数: 2
• 化学式量合計: 30157.05

構造登録者

Johansson, E.,Neuhard, J.,Willemoes, M.,Larsen, S. (登録日: 2004-02-18, 公開日: 2004-05-20, 最終更新日: 2023-12-13)

主引用文献

Johansson, E.,Neuhard, J.,Willemoes, M.,Larsen, S.
Structural, Kinetic, and Mutational Studies of the Zinc Ion Environment in Tetrameric Cytidine Deaminase
Biochemistry, 43:6020-, 2004

PubMed Abstract: The zinc-containing cytidine deaminase (CDA, EC 3.5.4.5) is a pyrimidine salvage enzyme catalyzing the hydrolytic deamination of cytidine and 2'-deoxycytidine forming uridine and 2'-deoxyuridine, respectively. Homodimeric CDA (D-CDA) and homotetrameric CDA (T-CDA) both contain one zinc ion per subunit coordinated to the catalytic water molecule. The zinc ligands in D-CDA are one histidine and two cysteine residues, whereas in T-CDA zinc is coordinated to three cysteines. Two of the zinc coordinating cysteines in T-CDA form hydrogen bonds to the conserved residue Arg56, and this residue together with the dipole moments from two alpha-helices partially neutralizes the additional negative charge in the active site, leading to a catalytic activity similar to D-CDA. Arg56 has been substituted by a glutamine (R56Q), the corresponding residue in D-CDA, an alanine (R56A), and an aspartate (R56D). Moreover, one of the zinc-liganding cysteines has been substituted by histidine to mimic D-CDA, alone (C53H) and in combination with R56Q (C53H/R56Q). R56A, R56Q, and C53H/R56Q contain the same amount of zinc as the wild-type enzyme. The zinc-binding capacity of R56D is reduced. Only R56A, R56Q, and C53H/R56Q yielded measurable CDA activity, R56A and R56Q with similar K(m) but decreased V(max) values compared to wild-type enzyme. Because of dissociation into its inactive subunits, it was impossible to determine the kinetic parameters for C53H/R56Q. R56A and C53H/R56Q display increased apparent pK(a) values compared to the wild-type enzyme and R56Q. On the basis of the structures of R56A, R56Q, and C53H/R56Q an explanation is provided of kinetic results and the apparent instability of C53H/R56Q.

PubMed: 15147186
DOI: 10.1021/BI035893X

実験手法

X-RAY DIFFRACTION (1.99 Å)