Towards the molecular mechanism of solute carrier proteins
Lead Research Organisation:
Imperial College London
Department Name: Life Sciences
Abstract
The results of various genome projects have shown that up to 30% of human proteins occur in cell membranes. The membrane transporters form the second largest family among these membrane proteins. The transporters are responsible for uptake and release of various substances including sugars, amino acids, drugs and minerals into or out of cells. Thus, membrane transporters play crucial roles in many biological functions and are of key importance for medicine and pharmacology. We need to understand membrane transporter structures to provide a basic understanding of life at the molecular level. Knowledge of the structure is also very useful for drug discovery enabling rational design of new small molecule ligands that can specifically inhibit the protein of interest and not affect other proteins, resulting in drugs with less side effects. This application is to study the structures and mechanisms of these transporters. To study the molecular properties of transporters, we use the method called ' protein X-ray crystallography'. For this method, it is essential to obtain crystals of the transporters, which are subsequently subjected to X-ray diffraction experiments. Although we have already obtained crystals of some transporters, it is still a difficult process to improve the crystals sufficiently to enable us to collect good quality X-ray diffraction data. This is because the membrane transporters are very hydrophobic and do not yield good quality crystals easily. Therefore, it would be extremely useful to perform this project at the new Research Complex at Harwell associated with Diamond Light Source. Good access to the high quality X-rays, produces by the beamlines at Diamond Light Source, are crucial for successful data collection from these membrane transporter crystals. The Diamond Light Source also accommodates the Diamond Membrane Protein Laboratory, a user facility for high throughput membrane protein crystallisation, which is also advantageous to facilitate optimisation of the crystals in this proposal.
Technical Summary
The results of various genome projects have shown that up to 30% of human proteins occur in cell membranes. The membrane transporters form the second largest family among these membrane proteins and play crucial roles in many biological functions. Although a large amount of work has been done in biochemistry and molecular biology, very little is known about the molecular details and mechanisms of these transporters. The current classification of transporters and proposed molecular mechanisms could be totally re-written once a variety of transporter structures are solved. This project will focus on mammalian solute carriers or their orthologues. We have already obtained 13 diffracting crystals of these carrier proteins belong to 5 solute carrier families. These families are the facilitative GLUT transporter family (SLC2), the bicarbonate transporter family (SLC4), the sodium/proton exchanger family (SLC9), the sodium bile salt cotransport family (SLC10) and the proton oligopeptide cotransporter family (SLC15). We will determine the structures of these family transporters to reveal the detailed recognition mechanisms for a variety of molecules. We will combine structural biology, molecular biology and computer simulations to understand their molecular transport mechanisms. To achieve these objectives, it is essential to set up a new laboratory for transporter purification and characterisation in RCaH. Good access to synchrotron radiation facilities such as those at the Diamond Light Source (DLS) is one of the keys for successful determination of challenging protein structures. DLS is currently building a microfocus beamline optimal for data collection from weakly diffracting membrane protein crystals. DLS also accommodates the Membrane Protein Laboratory for high throughput membrane protein crystallisation, which is advantageous for optimising the crystals in this proposal.
People |
ORCID iD |
So Iwata (Principal Investigator) |
Publications
Arakawa T
(2015)
Crystal structure of the anion exchanger domain of human erythrocyte band 3.
in Science (New York, N.Y.)
Axford D
(2015)
Structure determination of an integral membrane protein at room temperature from crystals in situ.
in Acta crystallographica. Section D, Biological crystallography
Beale J
(2010)
Structure of the aliphatic sulfonate-binding protein SsuA from Escherichia coli.
in Acta crystallographica. Section F, Structural biology and crystallization communications
Choudhury HG
(2011)
Structure and mechanism of the chalcogen-detoxifying protein TehB from Escherichia coli.
in The Biochemical journal
Choudhury HG
(2014)
Structure of an antibacterial peptide ATP-binding cassette transporter in a novel outward occluded state.
in Proceedings of the National Academy of Sciences of the United States of America
Hino T
(2012)
G-protein-coupled receptor inactivation by an allosteric inverse-agonist antibody.
in Nature
Hu NJ
(2011)
Crystal structure of a bacterial homologue of the bile acid sodium symporter ASBT.
in Nature
Iwata M
(2012)
The structure of the yeast NADH dehydrogenase (Ndi1) reveals overlapping binding sites for water- and lipid-soluble substrates.
in Proceedings of the National Academy of Sciences of the United States of America
Lee C
(2013)
A two-domain elevator mechanism for sodium/proton antiport.
in Nature
Lee C
(2014)
Crystal structure of the sodium-proton antiporter NhaA dimer and new mechanistic insights.
in The Journal of general physiology
Description | This proposal is to study the structures and mechanisms of membrane transport proteins with particular emphasis on solute carrier proteins. The project will focus on mammalian solute carriers involved in important cellular functions or their orthologues. We have already obtained 13 diffracting crystals of these carrier proteins belong to 5 solute carrier families. These families are the facilitative GLUT transporter family (SLC2), the bicarbonate transporter family(SLC4), the Na+/ H+ exchanger family(SLC9), the sodium bile salt cotransport family (SLC10) and the proton oligopeptide cotransporter family (SLC15). We have solved many of these structures. The project is still on-going. |
Exploitation Route | By publications and the deposited coordinates |
Sectors | Healthcare |
URL | http://www.diamond.ac.uk/Beamlines/Mx/MPL.html |
Description | Diamond Membrane Protein Laboratory |
Amount | £1,000,000 (GBP) |
Funding ID | WT099165/Z/12/Z |
Organisation | Wellcome Trust |
Sector | Charity/Non Profit |
Country | United Kingdom |
Start | 03/2013 |
End | 02/2016 |
Title | Transporters |
Description | The coordinates of a series of membrane transporters were deposited with PDB. 2XUT, 4TPG, 4TPJ and 4APS are for peptide transporters, 2JLN, 2JLO and 2X79 are for a hydantoin transporter, 4BWZ is for Na+/H+ antiporter, 3ZUY and 3ZUX are for a bile acid transporter, 4PLO is for an ABC transporter. |
Type Of Material | Database/Collection of data |
Year Produced | 2008 |
Provided To Others? | Yes |
Impact | Reveals new structures of a variety of transporters. These will be used for further functional studies and drug discovery. |
URL | http://www.rcsb.org |
Description | Diamond Membrane Protein Laboratory |
Organisation | Diamond Light Source |
Country | United Kingdom |
Sector | Private |
PI Contribution | Co-organise Diamond Membrane protein Laboratory |
Collaborator Contribution | Providing the space and the technical assistance |
Impact | We have co-organised the Diamond Membrane Protein Laboratory and our users and ourselves made publications. |
Description | Diamond MPL |
Form Of Engagement Activity | A press release, press conference or response to a media enquiry/interview |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Media (as a channel to the public) |
Results and Impact | Many newspapers and web sites covered the topic. Many response from the public. |
Year(s) Of Engagement Activity | 2009 |
URL | http://www.diamond.ac.uk/Home/News/LatestNews/22_07_09.html |