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PROXIMA-2A

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Welcome to PROXIMA-2A! 
A leading light for biology, chemistry and micro-crystallography.

PROXIMA 2A (PX2-A) is a microfocus beamline dedicated to biological crystallography and innovative micro-beam methodologies. Opened to the scientific community since 2013, the topics treated on the beamline go beyond standard protein crystallography and include drug discovery, membrane proteins, virus crystallography, small molecule crystallography, powder diffraction and even crystalluria.   The beamline is highly automated and designed to help scientists tackle the most challenging structural targets and biological systems. The X-ray energy is rapidly tunable over a wide range (6-18 keV) making the most commonly used absorption edges accessible for anomalous diffraction experiments.  The end station is equipped with a high capacity sample-changing system (148 SPINE pins), a high performance micro-diffractometer with a mini-kappa (MD2), an X-ray fluorescence detector (KETEK), and a fast, low-noise, photon-counting, area detector - the EIGER X 9M (238 fps in 9M mode, 750 fps in 4M mode).

See also Biology Health : HelioBio

Team

SHEPARD
SHEPARD William
Beamline Manager
SAVKO
SAVKO Martin
Beamline Scientist
SIRIGU
SIRIGU Serena
Beamline Scientist
JEANGERARD
JEANGERARD Damien
PERL
PERL David
DURAN Denis
Assistant Engineer
MEIJERS Rob
Beamline Scientist
SIMPKIN Adam
Doctoral Student

Job Opportunities

Post-Doctoral Fellowship (18 months) - Development of serial crystallography methods as applied to MOFs and POMs

We have an 18-month ANR-funded post-doctoral fellowship available immediately to participate in the development of serial crystallography methods as applied to MOFs and POMs. This is an ANR project lead by the PROXIMA 2 beamline (Synchrotron SOLEIL) in a collaboration with the IMAP (ENS, Paris) and the ILV (University of Versailles Saint Quentin, Versailles). He/she will work at IMAP and on the PROXIMA 2 beamline, and he/she will be under the direct responsibility of the head of IMAP.

Please contact William SHEPARD or click on the link below for more information.

https://docs.google.com/document/d/e/2PACX-1vRXXfkKMAuvz7e5jv0eICG0a4kW1Yahlptbb32sTaJ5HBo8vst1aWdHrdGXmYrw8Rbj4ThSlUNwvEDz/pub

Posters & Presentations

Poster - Mechanical Engineering Design of Synchrotron Radiation Equipment and Instrumentation (MEDSI 2018), 25-29 June 2018. Paris, France.

Poster - Biologie Structurale Integrative (BSI), 29 Nov - 03 Dec 2021, Paris-Saclay, France.

Webinar - ReNaFoBis Webinar Series, 09 Dec 2020, Paris, France

Technical data

Energy range

6 - 18 keV

Energy Resolution

~0.0002 (Si 111)

Source

Two U24 canted undulators (4.5 mrad)

Flux @ first optical element

White beam – depends on undulator settings

Optics

Cryogenically cooled channel cut crystal monochromator, a convex prefocussing mirror and a Kirkpatrick-Baez pair of focussing mirrors

Polarization

Linear

Detectors

EIGER X 9M area detector for X-ray diffraction images (238 fps in 9M mode, 750 fps in 4M mode)

Ketek SDD detector for X-ray fluorescence scans

Diamond scCVD and Ti foil XBPMs

High resolution X-ray camera (SOLEIL in-house design)

Scientific opportunities

Micro-crystallography

Small and weakly diffracting crystals

SAD and MAD phasing

Phasing with a range of heavy atoms, including sulphur

Plate screening

Screening of crystallization trays

 

Beamline Updates

2022-06-13 ADXV & ALBULA

  • ADXV and ADXV_FOLLOW are now available the to visulise diffraction images. In ADXV, first click on the MASTER file to load the data collection parameters (distance, wavelength, beam centre, etc...). The commands are :
    • adxv
    • adxv_follow
  • With change of HDF5 file structure, ALBULA does not display all diffraction images correctly on the workstation proxima2a-10. While we remedy the situation, please use ADXV and ADXV_FOLLOW.

 

2022-06-13 CBF files automatically generated

  • CBF files are now automatically generated and stored in a sub-directory ${prefix}_cbf.

 

2022-06-02 EIGER Firmware Update

  • Following an update of the EIGER 9M firmware, the HDF5 structure has changed somewhat, and the Neggia EIGER plugin (version 0.6), which processes both old and new HDF5 files can be found at the following link: https://bit.ly/dectris_neggia_0p6_linux. Please contact us if you have any problems processing data.
    • autoPROC - It should work if with the correct Neggia plug-in

    • xdsme - Modify the following lines in XIO.py:

      • "import pyfive" -> "import h5py"

      • self.rawHead = pyfive.File(self.fileName) -> self.rawHead = h5py.File(self.fileName, 'r')

PX2-A Scheduling Calendar

Calendars of the available beamtime on the PROXIMA 2A beamline are available at these links:

 

Before visiting PX2-A

Please contact your LC before departing your lab or starting your session if collecting via remote access.

Sending Dewars

For REMOTE ACCESS users, please also send with your Dewar:

  • a Hard Disk Drive (HDD 1-2 To)
  • a Return Label or Return Way Bill

Dewars should be sent to your Local Contact (one of the people below):

  • William SHEPARD (Beamline Responsable)
  • Serena SIRGU
  • Martin SAVKO

PROXIMA 2A beamline telephone numbers (use on of these for transporting Dewars):

  • +33-1-6935-8180 (fixed land line)
  • +33-1-6935-8181 (hand held wireless)

 

SOLEIL's address is:

PROXIMA 2A
Synchrotron SOLEIL
L'Orme des Merisiers
Saint-Aubin, BP 48
91192 GIF-sur-YVETTE CEDEX
FRANCE

Please notify your Local Contact, so that (s)he can refill your dewar upon arrival!

The return of shipping dewars shall be paid by the user. Please provide a FEDEX or DHL account number to your Local Contact. Click here to download a copy of the Dewar Return Form.

Remote Access

For REMOTE ACCESS

  • Please read the documentation to connection via NoMachine (NX)
  • Ensure that you have:
    • a high resolution screen (2560 * 1440 pixels) - this is VERY IMPORTANT
    • a 3-button mouse with a scroll wheel (for centering crystals)
    • an ADSL or fiber-optic internet connection
  • Test your Remote Access connection
    • organise a time to test with the PX2-A staff
    • test the connection 2-3 days before your session
  • Dewars
    • Label your Dewar properly
      • Your name, address & email
      • Project Number
      • Beamline
      • Local Contact or BL Manager
    • Include the following with your Dewar
      • a Hard Disk Drive (HDD 1-2 TB)
      • a Return Shipping Label or Transporter Account Number
    • Send or drop off your Dewar, which must arrive:
      • either 24 hours before your session
      • or the Friday morning for weekend sessions
      • Dewars may be dropped off at the SOLEIL gate

    Types of samples (and videos)

    PROXIMA-2A will take ANY & ALL samples! This includes the BIG, the SMALL and the UGLY!

    • big > 10 microns
    • small < 10 microns
    • ugly = split, fractured and clumped crystals, because these are sometimes made up of nice micro-crystals!

     
    Types of sample pins :

    - SPINE standard pins only

    • pin length = 22 mm (from loop to base)
    • goniometer horizontal range = -25 to +5 mm
       

    - Manual mounting

    • Suitable pins are Hampton, Mitegen & Molecular Dimensions
    • Goniometer now contains a mini-kappa, which can incline the smart magnet for easy cryo-transfers (set omega = 0° and kappa = 30 - 60°)

    - Robot mounting

    • The CATS robotic sample changer can hold up to nine (9) uni-pucks which each hold 16 SPINE pins, for a total of 144 pins
    • Suitable pins are Hampton, Mitegen & Molecular Dimensions

    A short video explaining mounting procedures :

    A further video showing the use of a dry shipper and sample recovery :

    During your visit

    - Start & finish times for PROXIMA-2A users:

    • 8:30 am – 8:00 am
       

    - Equipment & accessories available to users include:

    • Microscopes, SPINE pins, loops & wands for fishing crystals
    • Cryo-equipment - liquid nitrogen, handling dewars, cryo-tongs, gloves, etc...
    • ALL OF THIS EQUIPMENT MUST REMAIN ON THE BEAMLINE!
       

    - Data Collection Control: Users launch their experiments via the MXCuBE GUI. See the link below for the PX2-A MXCuBE users guide:

    - Functionalities

    • beam location
    • sample transfers (manual & robotic)
    • crystal centring
    • data collections
    • energy changes, Escans & XFE spectra
    • Mesh, Grid and X-ray centering scans
       

    - Accessible X-ray wavelengths

    • 6 – 18 keV
       

    - Accessible absorption edges

    • K-edges Cr – Zr
    • L3-edges Ce - U
       

    - Typical data collection times

    • Minimum exposure time 4.2 ms per frame (238 fps), nominal exposure time 4.5 ms per frame (222 fps)
    • 16.2 s per nominal data collection rate (4.5 ms per frame, 0.1 degrees per frame, 3600 frames)
    • most crystals require 4.5 ms per 0.1 degrees oscillation angle
       

    - Visualising diffraction images

    • ALBULA
    • ADXV
       

    - Data processing

    • XDSME
       

    - Canteen Opening Hours

    • Closed during shutdowns
    • Weekdays (Monday - Friday) : Breakfast 7:30 - 9:00   Lunch 11:45 - 13:45      Dinner 19:00 - 21:00 (closing at 21:30)
    • Weekends& Holidays :             Breakfast 7:30 - 9:00   Lunch 12:30 - 13:30      Dinner 19:00 - 21:00 (closing at 21:30)

    After your experiment

    - Repatriating your data

    • download on to external disk drives via USB2 port
    • if possible, use the automated script "altsync" (Cntrl-C to stop, and then dimount the drive).
    • Only low volumes of data (e.g. MTZ files) can be practically downloaded via the SOLEIL Data Retrieval system

     

    - Remove ALL of your samples

    - Sign the Safety Approval Sheet

    Important: Please send to us any slides, images or publications of your results... the more the merrier! Bon courage!

    Recuperating your data via GLOBUS

    You may download your data via GLOBUS. You will need to:

    • Read the GLOBUS documentation
    • Have a decent internet connection
      • e.g. Free Box with optical fiber connection
        • forsee 40 minutes for 100 GB
    • Log in to GLOBUS via your ORCID account number
      • e.g. ORCID #0000-0001-2345-6789 (if you do not have one, create one)
    • Switch off any VPN software which blocks the autogeneration of the GLOBUS security key
      • e.g. SecurePulse
    • Log in with you SOLEIL project user_id, etc...
      • 20220123 [we02LK98]
    • Deactivate the Screen Saver and Power Nap
      • these may interrupt the download
    • IMPORTANT: After you have transferred your data, please remember to UNLINK (disconnect) your data link!!!
      • "Unable to link identities" .... "20220123@re-globus-01.synchrotron-soleil.fr is already linked to 0000-0001-2345-6789@orcid.org, you must unlink it..."
      • See Section 7 of the Globus documentation.