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Rosetta 3 - Applications
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FAQ by admin » Mon, 2010-08-30 04:18 |
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by admin Fri, 2015-09-04 16:17 |
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Dock cyclic peptide with non-canonical amino acids to protein target using rosetta flexpepdock? by lei » Mon, 2023-09-11 23:34 |
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71 |
by lei Wed, 2023-09-13 19:35 |
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Antibody Structure Prediction - Error on antibody_H3 step: "Option matching -antibody:remodel not found in command line" by ramon-arg » Mon, 2023-07-24 17:56 |
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78 |
by ramon-arg Mon, 2023-07-24 17:56 |
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How do I compare the results of InterfaceAnalyzer using different trimers as input? by franz72 » Sun, 2023-08-06 10:10 |
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90 |
by franz72 Sun, 2023-08-06 10:10 |
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FixedBB design output no beta strands by tkoh » Fri, 2023-08-25 01:02 |
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105 |
by rmoretti Tue, 2023-08-29 20:13 |
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Memory Leak in FragmentPicker.cxx11thread application by Corvin » Tue, 2023-07-11 06:04 |
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112 |
by Corvin Thu, 2023-07-13 05:30 |
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ERROR: ResidueType::add_ring: Requested atoms don't exist in this ResidueType! by walidabualafia » Thu, 2023-07-20 09:44 |
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112 |
by rmoretti Thu, 2023-07-20 10:08 |
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ValueError("Path %s does not exist!" % path_name) for rna_helix.py by kameisel » Wed, 2023-08-16 00:39 |
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126 |
by kameisel Wed, 2023-09-13 02:16 |
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Generating a new Vall database by vijay.anand » Tue, 2023-06-20 12:08 |
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128 |
by vijay.anand Tue, 2023-06-20 12:08 |
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Silent File Scores Missing: RNA Protein Complex Predition by axio23 » Fri, 2023-06-16 05:45 |
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133 |
by axio23 Fri, 2023-06-16 05:45 |
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non-zero ddG of binding even without mutations by top-gun98 » Wed, 2023-06-07 17:19 |
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138 |
by top-gun98 Wed, 2023-06-07 17:19 |
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Rosetta Design: Non-canonical amino acid substrate not accepted by Friedrich Ehinger » Fri, 2023-08-04 00:09 |
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146 |
by Friedrich Ehinger Fri, 2023-08-04 08:38 |
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PyIgClassify cannot renumber and label CDRs my Nanobody-Antigen complex for RabD by WBNeT » Fri, 2023-07-07 10:58 |
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147 |
by jadolfbr Mon, 2023-07-10 09:05 |
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RECCESS-Rosetta Segmentation Fault with nonnatural residues by skorro » Tue, 2023-07-25 17:13 |
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157 |
by skorro Fri, 2023-07-28 12:20 |
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rosetta_cm - ERROR: Assertion `tlen < slen` failed on File: src/core/fragment/util.cc:177 by ramon-arg » Thu, 2023-07-13 18:41 |
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167 |
by ramon-arg Fri, 2023-07-14 07:47 |
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Simple_cycpep_predict with crosslinker BBMB by Ken » Tue, 2023-05-09 08:52 |
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169 |
by Ken Tue, 2023-05-09 08:52 |
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error in loop remodeling by syntekabio2019 » Wed, 2023-04-05 01:00 |
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175 |
by syntekabio2019 Wed, 2023-04-05 01:01 |
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dG_separated values comparison by almeida85 » Mon, 2023-04-24 03:34 |
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189 |
by almeida85 Tue, 2023-05-16 01:02 |
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Missing atoms, unable to fill in missing atoms by kwu030 » Fri, 2023-05-05 13:41 |
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197 |
by rmoretti Fri, 2023-05-05 13:44 |
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cluster docked pdbs by kwu030 » Wed, 2023-06-14 22:48 |
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207 |
by rmoretti Wed, 2023-06-28 12:36 |
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Error with xml script by almeida85 » Tue, 2023-03-28 01:53 |
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239 |
by almeida85 Tue, 2023-05-16 01:00 |
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CC (or similar) calculation for cryoEM fitting by almeida85 » Tue, 2023-05-16 01:32 |
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255 |
by almeida85 Tue, 2023-05-23 08:23 |
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fragment_picker:[ ERROR ] UtilityExitException ERROR: can't open file: $ROSETTA/tools/fragment_tools/vall.jul19.2011.gz by yueyuedake » Wed, 2023-07-12 03:36 |
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293 |
by yueyuedake Sun, 2023-07-16 19:17 |
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Docking one protein into interface between two other proteins by Cheems » Sat, 2023-05-06 09:49 |
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299 |
by rmoretti Mon, 2023-05-08 13:14 |
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Trehalose by jpfuenzalidawx » Thu, 2022-09-08 00:49 |
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520 |
by jpfuenzalidawx Thu, 2022-09-08 00:49 |
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Protein Protein Docking with Linker by mrinal » Mon, 2023-03-20 15:58 |
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527 |
by mrinal Mon, 2023-03-20 15:58 |
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Repacker vs minimization by Elijah_Hix » Fri, 2021-07-02 07:25 |
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540 |
by Elijah_Hix Fri, 2021-07-02 07:25 |
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pMHC modelling by Roberto » Thu, 2022-08-04 07:11 |
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543 |
by Roberto Thu, 2022-08-04 07:11 |
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FlexPepDock ab initio: behavior without fragment files by nrollins » Mon, 2021-07-26 14:16 |
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549 |
by nrollins Mon, 2021-07-26 14:16 |
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EMERALD method not working, Rosetta version not available for download by seba » Thu, 2023-05-04 08:14 |
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560 |
by rmoretti Mon, 2023-07-10 08:57 |
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Error with RNA_denovo by zmfowler » Thu, 2022-07-14 05:34 |
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565 |
by zmfowler Thu, 2022-07-14 05:34 |
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Prepacking a macrocycle for docking / preserving cyclization by almeida85 » Thu, 2022-09-08 06:54 |
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565 |
by almeida85 Thu, 2022-09-08 06:54 |
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Rosetta DARc suboptimal dockings by ddhoyo » Mon, 2021-10-11 06:18 |
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568 |
by ddhoyo Mon, 2021-10-11 06:18 |
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Segfault with Pepspec by almeida85 » Thu, 2021-02-11 02:56 |
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568 |
by almeida85 Thu, 2021-02-11 02:56 |
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Per residue total score by johnnytam100 » Wed, 2022-07-13 21:57 |
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569 |
by johnnytam100 Wed, 2022-07-13 21:57 |
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Pepspec - sequence sampling by almeida85 » Thu, 2022-06-23 04:05 |
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570 |
by almeida85 Thu, 2022-06-23 05:50 |
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CS-Rosetta cofactor by martongadanecz » Wed, 2022-08-03 01:05 |
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574 |
by martongadanecz Wed, 2022-08-03 01:05 |
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Include MHC alpha helices in loop modelling protocol for pMHC complex by Roberto » Thu, 2022-08-04 07:22 |
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582 |
by Roberto Thu, 2022-08-04 07:22 |
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FlexPepDock bug? Constraints do not appear in total_score? by nrollins » Mon, 2021-07-26 14:29 |
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597 |
by nrollins Mon, 2021-07-26 14:29 |
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Writing down properties for new atom types by Corvin » Tue, 2021-01-12 04:30 |
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by Corvin Wed, 2021-01-13 04:00 |
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problem in using "zinc_site_redesign" tool by Isomerase » Mon, 2022-03-28 01:19 |
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by Isomerase Mon, 2022-03-28 01:19 |
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What is an SS0 predictor? by ojmel » Fri, 2021-04-02 14:25 |
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604 |
by ojmel Mon, 2021-04-12 07:50 |
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metalloprotein ab initio with glutamic acid by inorgchem » Tue, 2020-06-16 20:45 |
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611 |
by inorgchem Tue, 2020-06-16 20:45 |
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Benchmarking Rosetta DDG Methods by sareeves96 » Fri, 2022-07-29 09:55 |
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617 |
by sareeves96 Fri, 2022-07-29 09:55 |
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Patch to impose tetrahedral geometry on backbone O atom by georg » Thu, 2021-04-08 09:30 |
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621 |
by georg Thu, 2021-04-08 09:31 |
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Symmetry definition file versions by Jeff Qu » Tue, 2021-09-28 09:53 |
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625 |
by Jeff Qu Tue, 2021-09-28 09:53 |
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Docking HeparinSulfate to proteins using GlycanDock by GebauerJ » Tue, 2022-08-16 07:44 |
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626 |
by GebauerJ Tue, 2022-08-16 07:44 |
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Ligand Docking with ROSETTA by sc19 » Thu, 2022-07-14 01:32 |
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631 |
by sc19 Thu, 2022-07-14 01:34 |
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Bug Report - Encoding issue by daniloboskovic » Tue, 2020-08-04 07:02 |
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632 |
by daniloboskovic Tue, 2020-08-04 07:02 |
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clashes created with enzdes by listofdina » Mon, 2021-08-02 06:51 |
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633 |
by listofdina Mon, 2021-08-02 06:51 |
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Params for a stapled helix peptide by e3lm » Thu, 2022-05-26 12:55 |
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635 |
by e3lm Thu, 2022-05-26 12:55 |
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flexpepdcok of lipid conjugated peptide with glyco protein. by ravi.thakkkar369 » Fri, 2020-12-18 13:00 |
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638 |
by ravi.thakkkar369 Fri, 2020-12-18 13:00 |
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Dimeric interface redesign by kjs1728 » Mon, 2022-05-02 21:57 |
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639 |
by kjs1728 Mon, 2022-05-02 21:57 |
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Ab Initio folding with HEM ligand molecule by jseco » Fri, 2021-03-05 06:49 |
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640 |
by jseco Mon, 2021-03-08 03:40 |
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Urgent issue: Error with submitting a new Rosetta-Vienna RNP-ddG job by eyaaaan » Sun, 2022-08-07 22:03 |
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641 |
by eyaaaan Tue, 2022-08-09 21:59 |
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Issues with modifying dock.xml for multiple ligand docking by DGR95 » Fri, 2021-05-14 12:51 |
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641 |
by DGR95 Fri, 2021-05-14 12:51 |
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PDB Clustering by code_Monkey » Mon, 2021-04-05 10:40 |
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645 |
by code_Monkey Mon, 2021-04-05 10:40 |
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FastRelax Refinement severe clashes by Victor Tobiasson » Thu, 2021-05-20 06:55 |
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650 |
by Victor Tobiasson Thu, 2021-05-20 06:55 |
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Linker Building in scFv by sam_dc » Sat, 2021-10-09 05:38 |
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650 |
by sam_dc Sat, 2021-10-09 05:38 |
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Macrocycle from a C-terminal amidated peptide by almeida85 » Thu, 2022-08-18 07:53 |
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651 |
by almeida85 Thu, 2022-08-18 07:53 |
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clustering output file has few structures by fabiotrovato » Mon, 2020-08-17 11:37 |
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652 |
by fabiotrovato Mon, 2020-08-17 11:37 |
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Enzyme Design Not Editing Structure by liuwenxi » Wed, 2022-05-18 10:12 |
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652 |
by liuwenxi Wed, 2022-05-18 10:12 |
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IL-2 gets better binding with beta / gamma by tonycheng1688 » Wed, 2022-05-25 10:23 |
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654 |
by tonycheng1688 Wed, 2022-05-25 10:23 |
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simple_cycpep_predict thioether_lariat option by Ken » Mon, 2022-03-14 15:14 |
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655 |
by Ken Mon, 2022-03-14 15:14 |
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Local docking- should I use KIC? by seayoung lee » Fri, 2022-05-27 02:45 |
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659 |
by seayoung lee Fri, 2022-05-27 02:45 |
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multi ligand docking using rosetta script by syntekabio2019 » Tue, 2021-04-13 19:31 |
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667 |
by syntekabio2019 Tue, 2021-04-13 19:31 |
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Question with rosetta AbPredict tutorial by terabithia2011 » Mon, 2021-01-25 09:24 |
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669 |
by terabithia2011 Mon, 2021-01-25 09:24 |
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Error with RoseTTAFold by sc19 » Thu, 2022-07-14 03:40 |
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677 |
by sc19 Thu, 2022-07-14 03:40 |
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Fewer than expected structures in clustering output by fabiotrovato » Thu, 2020-08-20 00:59 |
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682 |
by fabiotrovato Thu, 2020-08-20 00:59 |
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General question regarding ligand-docking by Alison_Yajie » Thu, 2020-05-07 09:48 |
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684 |
by Alison_Yajie Thu, 2020-05-07 09:48 |
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constraining different chains together in rosetta_cm by y_atsmonraz » Thu, 2021-11-18 02:59 |
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685 |
by y_atsmonraz Thu, 2021-11-18 03:01 |
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Side-chain grafting at the fixed protein and position by Kazu » Wed, 2020-05-20 08:49 |
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690 |
by Kazu Wed, 2020-05-20 08:49 |
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SnugDock Partners parameter by tyang39 » Fri, 2022-07-08 10:02 |
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693 |
by rmoretti Fri, 2022-07-08 10:27 |
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Pepspec Anchor Dock by Soler » Wed, 2020-09-16 19:08 |
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693 |
by Soler Wed, 2020-09-16 19:08 |
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minimize_ppi.mpi.linuxgccrelease doesn't use jd2? by e3lm » Tue, 2022-05-17 11:58 |
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696 |
by e3lm Tue, 2022-05-17 11:58 |
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snugdock run error: Sequence for partner1 does not match first member of ensemble1 by pagumaaaaa » Fri, 2022-03-25 01:21 |
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701 |
by pagumaaaaa Fri, 2022-03-25 01:21 |
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How many iterations of remodel is enough? by daniloboskovic » Thu, 2020-07-16 08:07 |
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702 |
by daniloboskovic Thu, 2020-07-16 08:14 |
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zero standard deviation of I_sc in protein-protein docking by rohi » Fri, 2020-07-03 22:19 |
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702 |
by rohi Fri, 2020-07-03 22:20 |
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Flex_ddG突变设计 by wangtao » Thu, 2022-05-05 02:46 |
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707 |
by wangtao Thu, 2022-05-05 02:46 |
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Creating fragment files for proteins less than 27 aa in length by Poladu » Tue, 2021-01-26 07:50 |
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707 |
by Poladu Tue, 2021-01-26 07:50 |
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SecundaryStructure Filter by Soler » Sun, 2021-11-21 22:20 |
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708 |
by Soler Sun, 2021-11-21 22:20 |
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Rosetta Matcher not recognizing protonation forms of CST files like CYZ, HIS_D, etc by Hirbond » Tue, 2022-03-01 13:16 |
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715 |
by Hirbond Tue, 2022-03-01 13:16 |
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shape complementarity by holdenj » Fri, 2022-07-15 13:24 |
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716 |
by rmoretti Fri, 2022-07-15 13:50 |
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Modelling humanized camelid like antibody by terabithia2011 » Tue, 2021-01-26 10:12 |
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717 |
by terabithia2011 Tue, 2021-01-26 10:12 |
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Scoring after HBNet by HHL_SIUC » Wed, 2020-07-01 10:49 |
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719 |
by HHL_SIUC Wed, 2020-07-01 10:49 |
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about “protein mimic designer” by sia » Wed, 2022-04-27 19:59 |
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719 |
by sia Wed, 2022-04-27 19:59 |
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appropriate sampling for protein docking to a multi chain assembly by SWM » Fri, 2020-01-24 11:22 |
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723 |
by SWM Fri, 2020-01-24 11:22 |
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RosettaAntibody3 - How can I model an extended H3? by brspurri » Fri, 2020-08-28 09:11 |
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725 |
by brspurri Fri, 2020-08-28 09:11 |
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Ligand docking with constraint by Alison_Yajie » Wed, 2020-06-24 12:34 |
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726 |
by Alison_Yajie Wed, 2020-06-24 12:34 |
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Expected density by GabrielDucrocq » Thu, 2022-07-14 06:38 |
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729 |
by matteoferla Wed, 2022-07-20 10:50 |
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Design of multimeric protein by ldlamini » Mon, 2021-01-11 07:23 |
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730 |
by ldlamini Mon, 2021-01-11 07:23 |
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Protein design: Ligand binding between two units of a homodimer by chemotaxis_123 » Sun, 2022-01-02 16:01 |
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735 |
by chemotaxis_123 Sun, 2022-01-02 16:01 |
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How to apply cartesian_ddg to multi-metric enzyme? by Wang Zhe » Wed, 2021-12-08 10:07 |
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736 |
by Wang Zhe Wed, 2021-12-08 10:07 |
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Residue selector by Alison_Yajie » Wed, 2020-06-17 19:57 |
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736 |
by Alison_Yajie Thu, 2020-06-18 09:47 |
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Remodel's problem in treatment with non-protein residues by Corvin » Mon, 2021-12-13 09:07 |
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741 |
by Corvin Mon, 2021-12-13 09:07 |
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"Residue 7 was disulfide bonded but had no partner" with antibody.linuxgccrelease by Sunyp_IM » Thu, 2020-06-04 05:53 |
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744 |
by Sunyp_IM Thu, 2020-06-04 05:54 |
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Grafting using antibody.mpi.linuxgccrelease and specifying custom template which doesnt have pdb id. by SubhaK » Wed, 2023-01-18 23:33 |
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747 |
by SubhaK Wed, 2023-01-18 23:33 |
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Metal Ion in symmetric design by tschiex » Wed, 2020-07-08 05:28 |
0 |
747 |
by tschiex Wed, 2020-07-08 05:28 |
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simple_cycpep_predict with N-term acetylation by Ken » Fri, 2021-12-17 09:49 |
0 |
752 |
by Ken Fri, 2021-12-17 09:49 |
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RemodelMover and Input Pose by ozyo » Tue, 2020-12-29 09:41 |
0 |
756 |
by ozyo Tue, 2020-12-29 09:41 |
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