4MV3

Crystal Structure of Biotin Carboxylase from Haemophilus influenzae in Complex with AMPPCP and Bicarbonate

4MV3 の概要

• エントリーDOI: 10.2210/pdb4mv3/pdb
• 関連するPDBエントリー: 1DV1 2VR1 4MV1 4MV4 4MV6 4MV7 4MV8 4MV9
• 分子名称: Biotin carboxylase, PHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE ESTER, 1,2-ETHANEDIOL, ... (5 entities in total)
• 機能のキーワード: atp-grasp, ligase
• 由来する生物種: Haemophilus influenzae
• タンパク質・核酸の鎖数: 1
• 化学式量合計: 51974.85

構造登録者

Broussard, T.C.,Pakhomova, S.,Neau, D.B.,Champion, T.S.,Bonnot, R.J.,Waldrop, G.L. (登録日: 2013-09-23, 公開日: 2015-01-14, 最終更新日: 2023-09-20)

主引用文献

Broussard, T.C.,Pakhomova, S.,Neau, D.B.,Bonnot, R.,Waldrop, G.L.
Structural Analysis of Substrate, Reaction Intermediate, and Product Binding in Haemophilus influenzae Biotin Carboxylase.
Biochemistry, 54:3860-3870, 2015

PubMed Abstract: Acetyl-CoA carboxylase catalyzes the first and regulated step in fatty acid synthesis. In most Gram-negative and Gram-positive bacteria, the enzyme is composed of three proteins: biotin carboxylase, a biotin carboxyl carrier protein (BCCP), and carboxyltransferase. The reaction mechanism involves two half-reactions with biotin carboxylase catalyzing the ATP-dependent carboxylation of biotin-BCCP in the first reaction. In the second reaction, carboxyltransferase catalyzes the transfer of the carboxyl group from biotin-BCCP to acetyl-CoA to form malonyl-CoA. In this report, high-resolution crystal structures of biotin carboxylase from Haemophilus influenzae were determined with bicarbonate, the ATP analogue AMPPCP; the carboxyphosphate intermediate analogues, phosphonoacetamide and phosphonoformate; the products ADP and phosphate; and the carboxybiotin analogue N1'-methoxycarbonyl biotin methyl ester. The structures have a common theme in that bicarbonate, phosphate, and the methyl ester of the carboxyl group of N1'-methoxycarbonyl biotin methyl ester all bound in the same pocket in the active site of biotin carboxylase and as such utilize the same set of amino acids for binding. This finding suggests a catalytic mechanism for biotin carboxylase in which the binding pocket that binds tetrahedral phosphate also accommodates and stabilizes a tetrahedral dianionic transition state resulting from direct transfer of CO₂ from the carboxyphosphate intermediate to biotin.

PubMed: 26020841
DOI: 10.1021/acs.biochem.5b00340

実験手法

X-RAY DIFFRACTION (1.69 Å)