8CL7 image
Entry Detail
PDB ID:
8CL7
Title:
Krokinobacter eikastus rhodopsin 2 (KR2) in dark state
Biological Source:
Source Organism:
PDB Version:
Deposition Date:
2023-02-16
Release Date:
2023-12-13
Method Details:
Experimental Method:
Resolution:
1.76 Å
R-Value Free:
0.18
R-Value Work:
0.15
R-Value Observed:
0.15
Space Group:
I 2 2 2
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:Sodium pumping rhodopsin
Chain IDs:A
Chain Length:265
Number of Molecules:1
Biological Source:Dokdonia eikasta
Primary Citation
A multi-reservoir extruder for time-resolved serial protein crystallography and compound screening at X-ray free-electron lasers.
Nat Commun 14 7956 7956 (2023)
PMID: 38042952 DOI: 10.1038/s41467-023-43523-5

Abstact

Serial crystallography at X-ray free-electron lasers (XFELs) permits the determination of radiation-damage free static as well as time-resolved protein structures at room temperature. Efficient sample delivery is a key factor for such experiments. Here, we describe a multi-reservoir, high viscosity extruder as a step towards automation of sample delivery at XFELs. Compared to a standard single extruder, sample exchange time was halved and the workload of users was greatly reduced. In-built temperature control of samples facilitated optimal extrusion and supported sample stability. After commissioning the device with lysozyme crystals, we collected time-resolved data using crystals of a membrane-bound, light-driven sodium pump. Static data were also collected from the soluble protein tubulin that was soaked with a series of small molecule drugs. Using these data, we identify low occupancy (as little as 30%) ligands using a minimal amount of data from a serial crystallography experiment, a result that could be exploited for structure-based drug design.

Legend

Protein

Chemical

Disease

Primary Citation of related structures