6VK5

Crystal Structure of Methylosinus trichosporium OB3b Soluble Methane Monooxygenase Hydroxylase and Regulatory Component Complex

Summary for 6VK5

• Entry DOI: 10.2210/pdb6vk5/pdb
• Descriptor: Methane monooxygenase component A alpha chain, Methane monooxygenase, Methane monooxygenase regulatory protein B, ... (9 entities in total)
• Functional Keywords: methane monooxygenase hydroxylase, oxidoreductase
• Biological source: Methylosinus trichosporium OB3b; More
• Total number of polymer chains: 8
• Total formula weight: 281700.95

Authors

Jones, J.C.,Banerjee, R.,Shi, K.,Aihara, H.,Lipscomb, J.D. (deposition date: 2020-01-18, release date: 2020-08-05, Last modification date: 2023-10-11)

Primary citation

Jones, J.C.,Banerjee, R.,Shi, K.,Aihara, H.,Lipscomb, J.D.
Structural Studies of theMethylosinus trichosporiumOB3b Soluble Methane Monooxygenase Hydroxylase and Regulatory Component Complex Reveal a Transient Substrate Tunnel.
Biochemistry, 59:2946-2961, 2020

PubMed Abstract: The metalloenzyme soluble methane monooxygenase (sMMO) consists of hydroxylase (sMMOH), regulatory (MMOB), and reductase components. When sMMOH forms a complex with MMOB, the rate constants are greatly increased for the sequential access of O, protons, and CH to an oxygen-bridged diferrous metal cluster located in the buried active site. Here, we report high-resolution X-ray crystal structures of the diferric and diferrous states of both sMMOH and the sMMOH:MMOB complex using the components from OB3b. These structures are analyzed for O access routes enhanced when the complex forms. Previously reported, lower-resolution structures of the sMMOH:MMOB complex from the sMMO of Bath revealed a series of cavities through sMMOH postulated to serve as the O conduit. This potential role is evaluated in greater detail using the current structures. Additionally, a search for other potential O conduits in the OB3b sMMOH:MMOB complex revealed a narrow molecular tunnel, termed the W308-tunnel. This tunnel is sized appropriately for O and traverses the sMMOH-MMOB interface before accessing the active site. The kinetics of reaction of O with the diferrous sMMOH:MMOB complex in solution show that use of the MMOB V41R variant decreases the rate constant for O binding >25000-fold without altering the component affinity. The location of Val41 near the entrance to the W308-tunnel is consistent with the tunnel serving as the primary route for the transfer of O into the active site. Accordingly, the crystal structures show that formation of the diferrous sMMOH:MMOB complex restricts access through the chain of cavities while opening the W308-tunnel.

PubMed: 32692178
DOI: 10.1021/acs.biochem.0c00459

Experimental method

X-RAY DIFFRACTION (1.86 Å)