4ZCU

Structure of calcium-bound regulatory domain of the human ATP-Mg/Pi carrier in the P2 form

Summary for 4ZCU

• Entry DOI: 10.2210/pdb4zcu/pdb
• Descriptor: Calcium-binding mitochondrial carrier protein SCaMC-1, CALCIUM ION, SULFATE ION, ... (5 entities in total)
• Functional Keywords: ef-hand, atp-mg/pi, carrier, calcium, transport protein
• Biological source: Homo sapiens (Human)
• Cellular location: Mitochondrion inner membrane ; Multi-pass membrane protein : Q6NUK1
• Total number of polymer chains: 3
• Total formula weight: 58319.68

Authors

Harborne, S.P.D.,Ruprecht, J.J.,Kunji, E.R.S. (deposition date: 2015-04-16, release date: 2015-07-22, Last modification date: 2024-01-10)

Primary citation

Harborne, S.P.,Ruprecht, J.J.,Kunji, E.R.
Calcium-induced conformational changes in the regulatory domain of the human mitochondrial ATP-Mg/Pi carrier.
Biochim.Biophys.Acta, 1847:1245-1253, 2015

PubMed Abstract: The mitochondrial ATP-Mg/Pi carrier imports adenine nucleotides from the cytosol into the mitochondrial matrix and exports phosphate. The carrier is regulated by the concentration of cytosolic calcium, altering the size of the adenine nucleotide pool in the mitochondrial matrix in response to energetic demands. The protein consists of three domains; (i) the N-terminal regulatory domain, which is formed of two pairs of fused calcium-binding EF-hands, (ii) the C-terminal mitochondrial carrier domain, which is involved in transport, and (iii) a linker region with an amphipathic α-helix of unknown function. The mechanism by which calcium binding to the regulatory domain modulates substrate transport in the carrier domain has not been resolved. Here, we present two new crystal structures of the regulatory domain of the human isoform 1. Careful analysis by SEC confirmed that although the regulatory domain crystallised as dimers, full-length ATP-Mg/Pi carrier is monomeric. Therefore, the ATP-Mg/Pi carrier must have a different mechanism of calcium regulation than the architecturally related aspartate/glutamate carrier, which is dimeric. The structure showed that an amphipathic α-helix is bound to the regulatory domain in a hydrophobic cleft of EF-hand 3/4. Detailed bioinformatics analyses of different EF-hand states indicate that upon release of calcium, EF-hands close, meaning that the regulatory domain would release the amphipathic α-helix. We propose a mechanism for ATP-Mg/Pi carriers in which the amphipathic α-helix becomes mobile upon release of calcium and could block the transport of substrates across the mitochondrial inner membrane.

PubMed: 26164100
DOI: 10.1016/j.bbabio.2015.07.002

Experimental method

X-RAY DIFFRACTION (2.1 Å)