Japan Partnering Award -XFEL and dynamic heme enzymology
Lead Research Organisation:
University of Leicester
Department Name: Molecular and Cell Biology
Abstract
Abstracts are not currently available in GtR for all funded research. This is normally because the abstract was not required at the time of proposal submission, but may be because it included sensitive information such as personal details.
Publications
Kwon H
(2021)
XFEL Crystal Structures of Peroxidase Compound II
in Angewandte Chemie
Kwon H
(2021)
XFEL Crystal Structures of Peroxidase Compound II.
in Angewandte Chemie (International ed. in English)
| Description | Experimental: By trapping a key intermediate (Compound II) in the catalytic pathway of the enzymes cytochrome c peroxidase and ascorbate peroxidase using the femtosecond pulses of the SACLA X-ray free electron laser to avoid the chemical effects of X-rays, we have shown that there is a key difference in the distances between the iron and oxygen atom in this state of these enzymes. This means the details of the chemistry needs to be re-evaluated. By visiting our partners in Japan we have not only enabled the collection of the necessary experimental data, we have also widened the collaborations between the UK and Japan-based group. The hosting of a UK-Japan meeting at Leicester in September 2023 facilitated knowledge exchange and collaboration. One of the participants (Dr Hitomi Sawai of Nakaski Unversity)) has joined the Leicester-centred LINXS Theme "Chemistry of Life" (https://www.linxs.se/chemistry-of-life), the inaugural meeting of the sub-theme on the role of metals in biology was held immediately preceding the UK-Japan meeting. A further outcome from the meeting is that we have been commissioned to assemble and edit a volume of Methods in Enzymology on time resolved methods in structural biology. |
| Exploitation Route | Use of XFELs to avoid seeing X-ray induced reduction of redox-sensitive sates will be applicable to the investigation of many other redox enzymes. The consolidation of links between the XFELs and synchotrons is expanding the methodology and scope for time-resolved analysis of enzyme mechanisms |
| Sectors | Manufacturing including Industrial Biotechology Pharmaceuticals and Medical Biotechnology |
| URL | https://timeresolved23.le.ac.uk/ |
| Title | Raw XFEL diffraction data from compound II of Ascorbate peroxidase |
| Description | raw X-ray data deposition for publication 10.1002/anie.202103010 and PDB ID 7BI1 |
| Type Of Material | Database/Collection of data |
| Year Produced | 2021 |
| Provided To Others? | Yes |
| Impact | making data publicly available will enable improvement in processing |
| Title | Raw diffraction images of CCP by SF-ROX at SACLA |
| Description | Diffraction images of cytochrome c peroxidase (CcP, PDB code: 7BIU). They were collected using X-ray free electron laser from SACLA at 15 keV with the serial femtosecond rotation crystallography (SF-ROX) method. The MX300-HS CCD detector was used to record images. CcP crystals belong to P212121 space group with a=50.81, b=75.54, c=106.57 Å. 10303 images were collected from 147 crystals, and 9145 images were merged at 1.06 Å resolution using CrystFEL 0.9.1 in the published result. The experiment was carried out on BL2. Images were converted to HDF5 files with measured photon energies. |
| Type Of Material | Database/Collection of data |
| Year Produced | 2021 |
| Provided To Others? | Yes |
| Impact | public availably of data will enable improvement of data processing methods |
| URL | https://zenodo.org/record/4484116 |
| Description | Diamond Light Source |
| Organisation | Diamond Light Source |
| Country | United Kingdom |
| Sector | Private |
| PI Contribution | Provided material for X-ray crystallography and X-ray fluorescence measurements, conducted or helped to conduct experiments |
| Collaborator Contribution | provided facilities and expert advice (including hands-on help) when requested |
| Impact | Nature Communications article (2016) listed in outputs |
| Start Year | 2014 |
| Description | 2023 International Joint Meeting of the 23rd International Conference on Cytochrome P450 and the 38th Annual Meeting of the Japanese Society for the study of Xenobiotics |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | A talk was given at an International (but Japan -focused) meeting on the study of and uses for heme enzymes. |
| Year(s) Of Engagement Activity | 2023 |
| URL | https://www.2023iccp450-jssx.org/En/index.html |
| Description | LINXS Reboot After the pandemics |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | Talk given as contribution to meeting "to discuss the LINXS science and development in the past four years and the future ambitions in expanding the LINXS community." Lund Sweden. Establishing contacts with ESS. MAXIV and Lund University community |
| Year(s) Of Engagement Activity | 2022 |
| URL | https://www.linxs.se/events/2022/2/2/linxs-science-day-the-development-and-future-vision-of-linxs |
| Description | UK Japan meeting on Dynamic and Time resolved crystallography 2 day meeting held in Leicester |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Study participants or study members |
| Results and Impact | An open meeting was held bringing together UK- (as well as European-) and Japan-based researchers using time -resolved methods at synchrotrons and XFELs to study enzyme mechanisms. Speakers wereinvited from Japan, Germany and Sweden as well as the UK. The program is available on https://timeresolved23.le.ac.uk/programme/ The two-day event was held at the University of Leicester, with most of the sessions also made available on-line. There were 70 in-person registrants. |
| Year(s) Of Engagement Activity | 2023 |
| URL | https://timeresolved23.le.ac.uk/dynamic-crystallography-xfels-and-synchrotrons-to-study-enzyme-react... |
| Description | Visit to PAL (Pohang Accelerator Laboratory) |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Study participants or study members |
| Results and Impact | Visit to XFEL to discuss collaboration and developments in methods of sample delivery for time-resolved enzyme studies |
| Year(s) Of Engagement Activity | 2023 |