1XVT

Crystal Structure of Native CaiB in complex with coenzyme A

Summary for 1XVT

• Entry DOI: 10.2210/pdb1xvt/pdb
• Related: 1XK6 1XK7 1XVU 1XVV
• Descriptor: Crotonobetainyl-CoA:carnitine CoA-transferase, COENZYME A (3 entities in total)
• Functional Keywords: caib, coa transferase, carnitine, crotonobetainyl coa, transferase
• Biological source: Escherichia coli
• Cellular location: Cytoplasm : P31572
• Total number of polymer chains: 1
• Total formula weight: 47017.58

Authors

Rangarajan, E.S.,Li, Y.,Iannuzzi, P.,Cygler, M.,Matte, A. (deposition date: 2004-10-28, release date: 2005-03-15, Last modification date: 2024-10-30)

Primary citation

Rangarajan, E.S.,Li, Y.,Iannuzzi, P.,Cygler, M.,Matte, A.
Crystal Structure of Escherichia coli Crotonobetainyl-CoA: Carnitine CoA-Transferase (CaiB) and Its Complexes with CoA and Carnitinyl-CoA.
Biochemistry, 44:5728-5738, 2005

PubMed Abstract: L-Carnitine (R-[-]-3-hydroxy-4-trimethylaminobutyrate) is found in both eukaryotic and prokaryotic cells and participates in diverse processes including long-chain fatty-acid transport and osmoprotection. The enzyme crotonobetainyl/gamma-butyrobetainyl-CoA:carnitine CoA-transferase (CaiB; E.C. 2.8.3.-) catalyzes the first step in carnitine metabolism, leading to the final product gamma-butyrobetaine. The crystal structures of Escherichia coli apo-CaiB, as well as its Asp169Ala mutant bound to CoA and to carnitinyl-CoA, have been determined and refined to 1.6, 2.4, and 2.4 A resolution, respectively. CaiB is composed of two identical circular chains that together form an intertwined dimer. Each monomer consists of a large domain, containing a Rossmann fold, and a small domain. The monomer and dimer resemble those of formyl-CoA transferase from Oxalobacter formigenes, as well as E. coli YfdW, a putative type-III CoA transferase of unknown function. The CoA cofactor-binding site is formed at the interface of the large domain of one monomer and the small domain from the second monomer. Most of the protein-CoA interactions are formed with the Rossmann fold domain. While the location of cofactor binding is similar in the three proteins, the specific CoA-protein interactions vary somewhat between CaiB, formyl-CoA transferase, and YfdW. CoA binding results in a change in the relative positions of the large and small domains compared with apo-CaiB. The observed carnitinyl-CoA product in crystals of the CaiB Asp169Ala mutant cocrystallized with crotonoyl-CoA and carnitine could result from (i) a catalytic mechanism involving a ternary enzyme-substrate complex, independent of a covalent anhydride intermediate with Asp169, (ii) a spontaneous reaction of the substrates in solution, followed by binding to the enzyme, or (iii) an involvement of another residue substituting functionally for Asp169, such as Glu23.

PubMed: 15823031
DOI: 10.1021/bi047656f

Experimental method

X-RAY DIFFRACTION (2.3 Å)