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Rao DF, Zhang H, Wang JL, Meng XX, Li ZZ, Xie CY, Jaidi IE, Dai L, Ye JJ, Zhu M, Peng YJ, Chen Q, Zhang DX, Teng YB. Structural insights into thesubstrate binding sites of O-carbamoyltransferase VtdB from Streptomyces sp. NO1W98. Biochem Biophys Res Commun 2023; 659:40-45. [PMID: 37031593 DOI: 10.1016/j.bbrc.2023.03.081] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/16/2023] [Accepted: 03/30/2023] [Indexed: 04/03/2023]
Abstract
The O-carbamoyltransferase VtdB catalyzes the carbamoylation of venturicidin B, which is essential for the biosynthesis of the antibiotic venturicidin A. Here, the crystal structures of VtdB and VtdB in complex with the intermediate carbamoyladenylate (VtdBCAO) were determined at resolutions of 2.99 Å and 2.90 Å, respectively. The structures resemble the conserved YrdC-like and specific Kae1-like domains. A magnesium ion and the intermediate carbamoyladenylate were also observed in the Kae1-like domain of VtdB. The structure of VtdBCAO in complex with the substrate venturicidin B was modeled by a molecular docking method to better understand the substrate binding mode, revealing a novel venturicidin B binding pocket.
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Affiliation(s)
- De-Fa Rao
- School of Life Sciences, Anhui Medical University, Hefei, Anhui, 230032, China
| | - Hui Zhang
- School of Life Sciences, Anhui Medical University, Hefei, Anhui, 230032, China
| | - Ju-Ling Wang
- School of Life Sciences, Anhui Medical University, Hefei, Anhui, 230032, China
| | - Xiao-Xiao Meng
- School of Life Sciences, Anhui Medical University, Hefei, Anhui, 230032, China
| | - Zhen-Zhen Li
- School of Life Sciences, Anhui Medical University, Hefei, Anhui, 230032, China
| | - Chun-Ya Xie
- School of Life Sciences, Anhui Medical University, Hefei, Anhui, 230032, China
| | - Ikrame El Jaidi
- School of Life Sciences, Anhui Medical University, Hefei, Anhui, 230032, China
| | - Li Dai
- School of Life Sciences, Anhui Medical University, Hefei, Anhui, 230032, China
| | - Jing-Jing Ye
- School of Life Sciences, Anhui Medical University, Hefei, Anhui, 230032, China
| | - Min Zhu
- School of Life Sciences, Anhui Medical University, Hefei, Anhui, 230032, China
| | - Yu-Jie Peng
- School of Life Sciences, Anhui Medical University, Hefei, Anhui, 230032, China
| | - Qi Chen
- School of Life Sciences, Anhui Medical University, Hefei, Anhui, 230032, China
| | - Dao-Xiang Zhang
- School of Life Sciences, Anhui Medical University, Hefei, Anhui, 230032, China.
| | - Yan-Bin Teng
- School of Life Sciences, Anhui Medical University, Hefei, Anhui, 230032, China.
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