ISDA: 6U57

Deposition Date 2019-08-27

Release Date 2020-09-02

Last Version Date 2023-10-11

Entry Detail

PDB ID:

6U57

Keywords:

TRANSFERASE

Title:

KDO8PS Structure Determined at the EuXFEL using Segmented Flow Injection

Biological Source:

Source Organism:

Escherichia coli (strain B / BL21-DE3) (Taxon ID: 469008)

Host Organism:

Escherichia coli

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

2.80 Å

R-Value Free:

0.24

R-Value Work:

0.18

R-Value Observed:

0.19

Space Group:

I 2 3

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Macromolecular Entities

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:2-dehydro-3-deoxyphosphooctonate aldolase
Chain IDs:A
Chain Length:284
Number of Molecules:1
Biological Source:Escherichia coli (strain B / BL21-DE3)

UniProt ID:P0A715 Pfam ID:PF00793

Primary Citation

Segmented flow generator for serial crystallography at the European X-ray free electron laser.

Echelmeier, A, Cruz Villarreal, J, Messerschmidt, M, Kim, D, Coe, J.D, Thifault, D, Botha, S, Egatz-Gomez, A, Gandhi, S, Brehm, G, Conrad, C.E, Hansen, D.T, Madsen, C, Bajt, S, Meza-Aguilar, J.D, Oberthur, D, Wiedorn, M.O, Fleckenstein, H, Mendez, D, Knoska, J, Martin-Garcia, J.M, Hu, H, Lisova, S, Allahgholi, A, Gevorkov, Y, Ayyer, K, Aplin, S, Ginn, H.M, Graafsma, H, Morgan, A.J, Greiffenberg, D, Klujev, A, Laurus, T, Poehlsen, J, Trunk, U, Mezza, D, Schmidt, B, Kuhn, M, Fromme, R, Sztuk-Dambietz, J, Raab, N, Hauf, S, Silenzi, A, Michelat, T, Xu, C, Danilevski, C, Parenti, A, Mekinda, L, Weinhausen, B, Mills, G, Vagovic, P, Kim, Y, Kirkwood, H, Bean, R, Bielecki, J, Stern, S, Giewekemeyer, K, Round, A.R, Schulz, J, Dorner, K, Grant, T.D, Mariani, V, Barty, A, Mancuso, A.P, Weierstall, U, Spence, J.C.H, Chapman, H.N, Zatsepin, N, Fromme, P, Kirian, R.A, Ros, A.Show

Nat Commun 11 4511 4511 (2020)

PMID: 32908128 DOI: 10.1038/s41467-020-18156-7

Abstact

Serial femtosecond crystallography (SFX) with X-ray free electron lasers (XFELs) allows structure determination of membrane proteins and time-resolved crystallography. Common liquid sample delivery continuously jets the protein crystal suspension into the path of the XFEL, wasting a vast amount of sample due to the pulsed nature of all current XFEL sources. The European XFEL (EuXFEL) delivers femtosecond (fs) X-ray pulses in trains spaced 100 ms apart whereas pulses within trains are currently separated by 889 ns. Therefore, continuous sample delivery via fast jets wastes >99% of sample. Here, we introduce a microfluidic device delivering crystal laden droplets segmented with an immiscible oil reducing sample waste and demonstrate droplet injection at the EuXFEL compatible with high pressure liquid delivery of an SFX experiment. While achieving ~60% reduction in sample waste, we determine the structure of the enzyme 3-deoxy-D-manno-octulosonate-8-phosphate synthase from microcrystals delivered in droplets revealing distinct structural features not previously reported.

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Primary Citation of related structures

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