Re: [ccp4bb] Displaying solvent channels in protein crystal
Thanks to Pierre and Blaine for suggesting Map-channels, this did exactly what I was looking for. all the best, Steve Dr Stephen Carr Research Complex at Harwell (RCaH) Rutherford Appleton Laboratory Harwell Oxford Didcot Oxon OX11 0FA United Kingdom Email stephen.c...@rc-harwell.ac.uk tel 01235 567717 From: CCP4 bulletin board on behalf of Mooers, Blaine H.M. (HSC) Sent: 02 September 2020 10:49 To: ccp4bb Subject: Re: [ccp4bb] Displaying solvent channels in protein crystal Hi Steve, Take a look at MAP_CHANNELS: a computation tool to aid in the visualization and characterization of solvent channels in macromolecular crystals by Douglas H. Juersa and Jon Ruffin doi: 10.1107/S160057671402281X. Best regards, Blaine Blaine Mooers, Ph.D. Associate Professor Department of Biochemistry and Molecular Biology College of Medicine University of Oklahoma Health Sciences Center S.L. Young Biomedical Research Center (BRC) Rm. 466 975 NE 10th Street, BRC 466 Oklahoma City, OK 73104-5419 From: CCP4 bulletin board [CCP4BB@JISCMAIL.AC.UK] on behalf of Carr, Stephen (MRC,RAL,RCAH) [stephen.c...@rc-harwell.ac.uk] Sent: Wednesday, September 02, 2020 4:16 AM To: CCP4BB@JISCMAIL.AC.UK Subject: [EXTERNAL] [ccp4bb] Displaying solvent channels in protein crystal Dear all, I would like to display the solvent channels in a protein crystal and get a good estimate of their dimensions. There are lots of widgets for looking at channels and voids within a protein, but it appears not so much for calculating the solvent channels between proteins. If anyone could offer some advice on the easiest way to do this I would be grateful. best wishes, Steve Dr Stephen Carr Research Complex at Harwell (RCaH) Rutherford Appleton Laboratory Harwell Oxford Didcot Oxon OX11 0FA United Kingdom Email stephen.c...@rc-harwell.ac.uk tel 01235 567717 This email and any attachments may contain confidential, copyrightand or privileged material, and are for the use of the intended addressee only. If you are not the intended addressee or an authorized recipient of the addressee, please notify us of receipt by returning the e-mail and do not use, copy, retain, distribute or disclose the information in or attached to this email. Any views or opinions presented are solely those of the author and do not necessarily represent those of the Research Complex at Harwell. There is no guarantee that this email or any attachments are free from viruses and we cannot accept liability for any damage which you may sustain as a result of software viruses which may be transmitted in or with the message. We use an electronic filing system. Please send electronic versions of documents, unless paper is specifically requested. This email may have a protective marking, for an explanation, please see: http://www.mrc.ac.uk/About/informationandstandards/documentmarking/index.htm<https://urldefense.proofpoint.com/v2/url?u=http-3A__www.mrc.ac.uk_About_informationandstandards_documentmarking_index.htm=DwMFAw=VjzId-SM5S6aVB_cCGQ0d3uo9UfKByQ3sI6Audoy6dY=k0gMbcsdOcdbPUNV5tW66KQSZfXL0ewVDPVBp7tqbks=rjbAFVQr_RYkoQDGg_Ls5AyZDQPA21j-caNZGhr6zTk=BImrqmGTqNM01qhlUpHAtQNk-VgYF--G0Y6L73Usb1s=>. To unsubscribe from the CCP4BB list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB=1<https://urldefense.proofpoint.com/v2/url?u=https-3A__www.jiscmail.ac.uk_cgi-2Dbin_WA-2DJISC.exe-3FSUBED1-3DCCP4BB-26A-3D1=DwMFAw=VjzId-SM5S6aVB_cCGQ0d3uo9UfKByQ3sI6Audoy6dY=k0gMbcsdOcdbPUNV5tW66KQSZfXL0ewVDPVBp7tqbks=rjbAFVQr_RYkoQDGg_Ls5AyZDQPA21j-caNZGhr6zTk=sbgsHiw-TlLW4BoDn0KyPFEb0-GBEHvWl9Qgg6X5h1w=> To unsubscribe from the CCP4BB list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB=1 This message was issued to members of www.jiscmail.ac.uk/CCP4BB<http://www.jiscmail.ac.uk/CCP4BB>, a mailing list hosted by www.jiscmail.ac.uk<http://www.jiscmail.ac.uk>, terms & conditions are available at https://www.jiscmail.ac.uk/policyandsecurity/ This email and any attachments may contain confidential, copyright and or privileged material, and are for the use of the intended addressee only. If you are not the intended addressee or an authorized recipient of the addressee, please notify us of receipt by returning the e-mail and do not use, copy, retain, distribute or disclose the information in or attached to this email. Any views or opinions presented are solely those of the author and do not necessarily represent those of the Research Complex at Harwell. There is no guarantee that this email or any attachments are free from viruses and we cannot accept liability for any damage which you may sustain as a result of software viruses which may be transmitted in or with the message. We use an elec
Re: [ccp4bb] Displaying solvent channels in protein crystal
Hi Steve, Take a look at MAP_CHANNELS: a computation tool to aid in the visualization and characterization of solvent channels in macromolecular crystals by Douglas H. Juersa and Jon Ruffin doi: 10.1107/S160057671402281X. Best regards, Blaine Blaine Mooers, Ph.D. Associate Professor Department of Biochemistry and Molecular Biology College of Medicine University of Oklahoma Health Sciences Center S.L. Young Biomedical Research Center (BRC) Rm. 466 975 NE 10th Street, BRC 466 Oklahoma City, OK 73104-5419 From: CCP4 bulletin board [CCP4BB@JISCMAIL.AC.UK] on behalf of Carr, Stephen (MRC,RAL,RCAH) [stephen.c...@rc-harwell.ac.uk] Sent: Wednesday, September 02, 2020 4:16 AM To: CCP4BB@JISCMAIL.AC.UK Subject: [EXTERNAL] [ccp4bb] Displaying solvent channels in protein crystal Dear all, I would like to display the solvent channels in a protein crystal and get a good estimate of their dimensions. There are lots of widgets for looking at channels and voids within a protein, but it appears not so much for calculating the solvent channels between proteins. If anyone could offer some advice on the easiest way to do this I would be grateful. best wishes, Steve Dr Stephen Carr Research Complex at Harwell (RCaH) Rutherford Appleton Laboratory Harwell Oxford Didcot Oxon OX11 0FA United Kingdom Email stephen.c...@rc-harwell.ac.uk tel 01235 567717 This email and any attachments may contain confidential, copyrightand or privileged material, and are for the use of the intended addressee only. If you are not the intended addressee or an authorized recipient of the addressee, please notify us of receipt by returning the e-mail and do not use, copy, retain, distribute or disclose the information in or attached to this email. Any views or opinions presented are solely those of the author and do not necessarily represent those of the Research Complex at Harwell. There is no guarantee that this email or any attachments are free from viruses and we cannot accept liability for any damage which you may sustain as a result of software viruses which may be transmitted in or with the message. We use an electronic filing system. Please send electronic versions of documents, unless paper is specifically requested. This email may have a protective marking, for an explanation, please see: http://www.mrc.ac.uk/About/informationandstandards/documentmarking/index.htm<https://urldefense.proofpoint.com/v2/url?u=http-3A__www.mrc.ac.uk_About_informationandstandards_documentmarking_index.htm=DwMFAw=VjzId-SM5S6aVB_cCGQ0d3uo9UfKByQ3sI6Audoy6dY=k0gMbcsdOcdbPUNV5tW66KQSZfXL0ewVDPVBp7tqbks=rjbAFVQr_RYkoQDGg_Ls5AyZDQPA21j-caNZGhr6zTk=BImrqmGTqNM01qhlUpHAtQNk-VgYF--G0Y6L73Usb1s=>. To unsubscribe from the CCP4BB list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB=1<https://urldefense.proofpoint.com/v2/url?u=https-3A__www.jiscmail.ac.uk_cgi-2Dbin_WA-2DJISC.exe-3FSUBED1-3DCCP4BB-26A-3D1=DwMFAw=VjzId-SM5S6aVB_cCGQ0d3uo9UfKByQ3sI6Audoy6dY=k0gMbcsdOcdbPUNV5tW66KQSZfXL0ewVDPVBp7tqbks=rjbAFVQr_RYkoQDGg_Ls5AyZDQPA21j-caNZGhr6zTk=sbgsHiw-TlLW4BoDn0KyPFEb0-GBEHvWl9Qgg6X5h1w=> To unsubscribe from the CCP4BB list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB=1 This message was issued to members of www.jiscmail.ac.uk/CCP4BB, a mailing list hosted by www.jiscmail.ac.uk, terms & conditions are available at https://www.jiscmail.ac.uk/policyandsecurity/
[ccp4bb] Displaying solvent channels in protein crystal
Dear all, I would like to display the solvent channels in a protein crystal and get a good estimate of their dimensions. There are lots of widgets for looking at channels and voids within a protein, but it appears not so much for calculating the solvent channels between proteins. If anyone could offer some advice on the easiest way to do this I would be grateful. best wishes, Steve Dr Stephen Carr Research Complex at Harwell (RCaH) Rutherford Appleton Laboratory Harwell Oxford Didcot Oxon OX11 0FA United Kingdom Email stephen.c...@rc-harwell.ac.uk tel 01235 567717 This email and any attachments may contain confidential, copyright and or privileged material, and are for the use of the intended addressee only. If you are not the intended addressee or an authorized recipient of the addressee, please notify us of receipt by returning the e-mail and do not use, copy, retain, distribute or disclose the information in or attached to this email. Any views or opinions presented are solely those of the author and do not necessarily represent those of the Research Complex at Harwell. There is no guarantee that this email or any attachments are free from viruses and we cannot accept liability for any damage which you may sustain as a result of software viruses which may be transmitted in or with the message. We use an electronic filing system. Please send electronic versions of documents, unless paper is specifically requested. This email may have a protective marking, for an explanation, please see: http://www.mrc.ac.uk/About/informationandstandards/documentmarking/index.htm. To unsubscribe from the CCP4BB list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB=1 This message was issued to members of www.jiscmail.ac.uk/CCP4BB, a mailing list hosted by www.jiscmail.ac.uk, terms & conditions are available at https://www.jiscmail.ac.uk/policyandsecurity/
