5KJ7 image
Entry Detail
PDB ID:
5KJ7
Title:
Structure of the Ca2+-bound synaptotagmin-1 SNARE complex (long unit cell form) - from XFEL diffraction
Biological Source:
Source Organism:
Host Organism:
PDB Version:
Deposition Date:
2016-06-17
Release Date:
2016-10-19
Method Details:
Experimental Method:
Resolution:
3.50 Å
R-Value Free:
0.32
R-Value Work:
0.29
R-Value Observed:
0.29
Space Group:
P 21 21 21
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:Vesicle-associated membrane protein 3
Chain IDs:A, G
Chain Length:63
Number of Molecules:2
Biological Source:Rattus norvegicus
Polymer Type:polypeptide(L)
Description:Syntaxin-1A
Chain IDs:B, H
Chain Length:66
Number of Molecules:2
Biological Source:Rattus norvegicus
Polymer Type:polypeptide(L)
Description:Synaptosomal-associated protein 25
Chain IDs:C, I
Chain Length:75
Number of Molecules:2
Biological Source:Rattus norvegicus
Polymer Type:polypeptide(L)
Description:Synaptosomal-associated protein 25
Chain IDs:D, J
Chain Length:64
Number of Molecules:2
Biological Source:Rattus norvegicus
Polymer Type:polypeptide(L)
Description:Synaptotagmin-1
Chain IDs:E, F, K
Chain Length:279
Number of Molecules:3
Biological Source:Rattus norvegicus
Ligand Molecules
Primary Citation
Advances in X-ray free electron laser (XFEL) diffraction data processing applied to the crystal structure of the synaptotagmin-1 / SNARE complex.
Elife 5 ? ? (2016)
PMID: 27731796 DOI: 10.7554/eLife.18740

Abstact

X-ray free electron lasers (XFELs) reduce the effects of radiation damage on macromolecular diffraction data and thereby extend the limiting resolution. Previously, we adapted classical post-refinement techniques to XFEL diffraction data to produce accurate diffraction data sets from a limited number of diffraction images (Uervirojnangkoorn et al., 2015), and went on to use these techniques to obtain a complete data set from crystals of the synaptotagmin-1 / SNARE complex and to determine the structure at 3.5 Å resolution (Zhou et al., 2015). Here, we describe new advances in our methods and present a reprocessed XFEL data set of the synaptotagmin-1 / SNARE complex. The reprocessing produced small improvements in electron density maps and the refined atomic model. The maps also contained more information than those of a lower resolution (4.1 Å) synchrotron data set. Processing a set of simulated XFEL diffraction images revealed that our methods yield accurate data and atomic models.

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Primary Citation of related structures