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<p class="MsoNormal">We have experience working with relion up too 768^2 box size. I think it will do 1024 too if you skip padding (I might be wrong on this!)
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<p class="MsoNormal">Best,<o:p></o:p></p>
<p class="MsoNormal">Hamid</p>
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<div id="divRplyFwdMsg" dir="ltr"><font face="Calibri, sans-serif" style="font-size:11pt" color="#000000"><b>From:</b> 3dem <3dem-bounces@ncmir.ucsd.edu> on behalf of Sigworth, Frederick <fred.sigworth@yale.edu><br>
<b>Sent:</b> Tuesday, May 7, 2019 1:45:54 PM<br>
<b>To:</b> Parent, Kristin<br>
<b>Cc:</b> 3dem@ncmir.ucsd.edu<br>
<b>Subject:</b> Re: [3dem] troubleshooting help in relion?</font>
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<div>The box size awfully big, and it’s an odd number, which Relion won’t allow. At the typical 1A pixel size, your box would be 1099 angstroms in size. Is your particle that huge? Unless you know you will reach sub-2A resolution, your pixel size should be
about 1A at the smallest. And many people use the Rescale Particles option in Relion’s particle extraction to make the pixel size larger (and the box size, i.e. number of pixels on a side lower) for initial modeling. Even for something as large as a ribosome
I think resampling to 128 might be good for starters.
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<div class="">Fred<br class="">
<div><br class="">
<blockquote type="cite" class="">
<div class="">On May 7, 2019, at 12:52 PM, Parent, Kristin <<a href="mailto:kparent@msu.edu" class="">kparent@msu.edu</a>> wrote:</div>
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<span style="font-size: 11pt;" class="">Hello fellow cryo-EM-ers,<span class="Apple-converted-space"> </span></span><o:p class=""></o:p></div>
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<span style="font-size: 11pt;" class=""> </span><o:p class=""></o:p></div>
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<span style="font-size: 11pt;" class="">Has anyone seen this error message before? We are new to relion and can’t figure out the problem. Box size is 1099. Is that to big?</span><o:p class=""></o:p></div>
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<span style="font-size: 11pt;" class=""> </span><o:p class=""></o:p></div>
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<span style="font-size: 11pt;" class="">THANKS!</span><o:p class=""></o:p></div>
<div style="margin: 0in 0in 0.0001pt; font-size: 12pt; font-family: Calibri, sans-serif;" class="">
<span style="font-size: 11pt;" class="">Kristin<span class="Apple-converted-space"> </span></span><o:p class=""></o:p></div>
<div style="margin: 0in 0in 0.0001pt; font-size: 12pt; font-family: Calibri, sans-serif;" class="">
<span style="font-size: 11pt;" class=""> </span><o:p class=""></o:p></div>
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<span id="cid:image001.png@01D504D3.C002FED0"><image001.png></span><o:p class=""></o:p></div>
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<span style="font-size: 11pt;" class=""> </span><o:p class=""></o:p></div>
<div style="margin: 0in 0in 0.0001pt; font-size: 12pt; font-family: Calibri, sans-serif;" class="">
<span style="font-size: 11pt;" class=""> </span><o:p class=""></o:p></div>
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<span style="font-size: 9pt;" class="">--</span><o:p class=""></o:p></div>
<div style="margin: 0in 0in 0.0001pt; font-size: 12pt; font-family: Calibri, sans-serif;" class="">
<span style="font-size: 9pt;" class="">Kristin N. Parent, PhD</span><o:p class=""></o:p></div>
<div style="margin: 0in 0in 0.0001pt; font-size: 12pt; font-family: Calibri, sans-serif;" class="">
<span style="font-size: 9pt;" class="">JK Billman, Jr., MD Endowed Research Professor</span><o:p class=""></o:p></div>
<div style="margin: 0in 0in 0.0001pt; font-size: 12pt; font-family: Calibri, sans-serif;" class="">
<span style="font-size: 9pt;" class="">Acting Director, MSU Cryo-EM</span><o:p class=""></o:p></div>
<div style="margin: 0in 0in 0.0001pt; font-size: 12pt; font-family: Calibri, sans-serif;" class="">
<span style="font-size: 9pt;" class="">Assistant Professor of Biochemistry and<span class="Apple-converted-space"> </span></span><span style="font-size: 8pt;" class="">Microbiology</span><o:p class=""></o:p></div>
<div style="margin: 0in 0in 0.0001pt; font-size: 12pt; font-family: Calibri, sans-serif;" class="">
<span style="font-size: 8pt;" class="">Michigan State University</span><o:p class=""></o:p></div>
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<span style="font-size: 8pt;" class="">603 Wilson Rd</span><o:p class=""></o:p></div>
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<span style="font-size: 8pt;" class="">East Lansing, MI 48824</span><o:p class=""></o:p></div>
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<span style="font-size: 8pt;" class="">Phone: 517-432-8434</span><o:p class=""></o:p></div>
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<span style="font-size: 8pt; font-family: Arial, sans-serif;" class=""><a href="https://urldefense.proofpoint.com/v2/url?u=https-3A__nam05.safelinks.protection.outlook.com_-3Furl-3Dhttps-253A-252F-252Fkparentlab.natsci.msu.edu-252F-26data-3D02-257C01-257Cfred.sigworth-2540yale.edu-257C1513c89d7cd240010b0808d6d30c734a-257Cdd8cbebb21394df8b4114e3e87abeb5c-257C0-257C0-257C636928447795109387-26sdata-3D2oIvgjHapT2E5Y-252FgdCIpEMQ4bA60et1SmK-252FtcKsVnmE-253D-26reserved-3D0&d=DwMGaQ&c=MNHwOqQ8N1u91SoMLfIblwuGXKgp50OPUXjl8uRAbak&r=RsBMFMFp5qaziXZ3VLyvhg&m=3Or5mkzVDCEvFQgsl8XdBZ3YQGQU5vdd0SrE_7FRwgU&s=JMcLUeOB9syDWqkx0UsAoqLGHtlvjM5vJIAtssNLSCU&e=" originalsrc="https://kparentlab.natsci.msu.edu/" shash="mbk4rx7lPxNDDp85mGR41+rtMJ47ADrsg+qIT91Nha6U6OL6JJmCl1lVsEGlCcIL0fWoVfZCxZEMocEcQRBG7WCMYIlEKWI3XZN17x65XlaBTzvdkzvpllUHkRkXFHs1FIgB0GPKG56ys3J7TgEgrNDGCFeLI/uBkfxM3+ixcIY=" style="color: rgb(149, 79, 114); text-decoration: underline;" class="">https://kparentlab.natsci.msu.edu/</a></span><o:p class=""></o:p></div>
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<span style="font-size: 8pt; font-family: Arial, sans-serif;" class="">Twitter: @Phage4Lyfe</span><o:p class=""></o:p></div>
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