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Rosetta 3 - General
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FAQ by admin » Mon, 2010-08-30 04:16 |
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by admin Fri, 2015-09-04 16:17 |
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FARFAR2 error: [ERROR: Not complementary at positions] by Eden » Sat, 2023-11-18 02:39 |
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by Eden Sat, 2023-11-18 02:39 |
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Methodology Feedback with As(III) and Pb(II) Binding by rnogy » Mon, 2023-11-06 17:05 |
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by rnogy Mon, 2023-11-06 17:06 |
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protein-protein docking by LUOD » Thu, 2023-11-02 18:23 |
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by LUOD Thu, 2023-11-02 18:25 |
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FARFAR2 Error With Secondary Structure File by bdh81 » Thu, 2023-11-02 09:01 |
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141 |
by bdh81 Sun, 2023-11-05 16:04 |
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JD3 w/ Silent file output crashing - Option filename not found by aduffy33 » Mon, 2023-10-30 13:40 |
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148 |
by aduffy33 Mon, 2023-10-30 15:35 |
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Unable to download Rosetta by Yair Tenorio » Mon, 2023-10-23 11:48 |
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by Yair Tenorio Mon, 2023-10-23 12:29 |
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ERROR: Assertion `build_sets_[ build_set_id ].restype().has( "1HA" )` failed. ERROR:: Exit from: src/protocols/match/upstream/Pr by alove1 » Sat, 2023-10-28 17:19 |
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183 |
by alove1 Mon, 2023-10-30 13:18 |
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Predicting conformations of mutated residues by Delfosse57 » Tue, 2023-08-22 12:26 |
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by rmoretti Wed, 2023-08-23 08:26 |
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Questions about gen_apo_grids by JasonIsaac » Sat, 2023-06-17 00:20 |
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213 |
by JasonIsaac Sat, 2023-06-17 00:20 |
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Changing amino acid profile while keeping the backbone conformation between 2 protein structures (need help) by seamoon » Wed, 2023-05-24 07:46 |
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225 |
by seamoon Wed, 2023-05-24 07:46 |
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Scoring correlation with electron density map by mrosam » Thu, 2023-05-25 05:14 |
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230 |
by mrosam Thu, 2023-05-25 05:14 |
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how to generate _prepro.rama file for a customized beta-amino acid residues? by wwwmrzkwww » Sun, 2023-04-23 14:25 |
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by wwwmrzkwww Sun, 2023-04-23 14:25 |
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How many rifdock can I run at a time on a 64 CPUs and 512GB memory server? by JasonIsaac » Tue, 2023-05-02 03:39 |
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by JasonIsaac Tue, 2023-05-02 03:39 |
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Docking antibody to membrane protein by Yegor_Ko » Thu, 2023-10-12 07:37 |
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232 |
by Yegor_Ko Fri, 2023-10-20 01:35 |
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TaskOperations with AntibodyDesignMover by chenna » Sun, 2023-04-23 23:52 |
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by chenna Sun, 2023-04-23 23:52 |
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Any general way to generate .params file for beta and gamma NCAA? by wwwmrzkwww » Wed, 2023-04-26 12:35 |
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by wwwmrzkwww Wed, 2023-04-26 12:35 |
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Memory error - double free or corruption by almeida85 » Thu, 2023-05-25 06:18 |
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262 |
by almeida85 Thu, 2023-05-25 06:18 |
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Error in H3_modeling_scores.fasc file from antibody_H3 program by Brian Wiley » Sat, 2023-02-04 23:41 |
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by Brian Wiley Sat, 2023-02-04 23:43 |
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Error when using published constraints file by Delfosse57 » Thu, 2023-08-17 11:22 |
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286 |
by ikalvet Mon, 2023-08-21 05:52 |
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Rosetta remodelling - how to change the added residue type instead of just VAL by xuezhi » Wed, 2023-02-15 14:00 |
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by xuezhi Wed, 2023-02-15 14:00 |
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Segmentation fault with nstruct > 1 by Brian Wiley » Sun, 2023-02-12 20:46 |
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by Brian Wiley Sun, 2023-02-12 20:46 |
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How to set jump between ligands by Zehui Zhou » Wed, 2023-02-15 04:48 |
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322 |
by Zehui Zhou Wed, 2023-02-15 07:12 |
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GALigandDock errors by Delfosse57 » Mon, 2023-08-07 13:16 |
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by Delfosse57 Mon, 2023-08-07 13:16 |
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rosie github log in by YUANXU » Tue, 2023-04-25 20:13 |
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by Sergey Thu, 2023-04-27 12:03 |
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different relaxed energy scores for one same protein structure by ivareve125 » Sun, 2023-07-16 17:54 |
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by ivareve125 Mon, 2023-07-17 17:37 |
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Problem with sugar parameters by Martin Floor » Sat, 2023-10-07 10:17 |
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by Martin Floor Sat, 2023-10-07 10:17 |
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Error with residue selectors not counting indices correctly. by Wexter300 » Tue, 2023-04-04 11:04 |
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by ajasja Wed, 2023-04-05 00:20 |
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Which application/mover should I use to evaluate the ddg between apo enzyme and enzyme binding with transition state? by JasonIsaac » Wed, 2023-02-22 18:36 |
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by JasonIsaac Wed, 2023-02-22 18:36 |
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Replacing a single residue in a structure by Wexter300 » Sat, 2023-09-16 14:23 |
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by Wexter300 Sat, 2023-09-16 14:23 |
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Temperature by mrosam » Mon, 2022-08-08 01:37 |
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by mrosam Mon, 2022-08-08 01:37 |
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On iterations in ddg_monomer by Proteinmechanic » Fri, 2022-09-30 21:23 |
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390 |
by Proteinmechanic Fri, 2022-09-30 21:23 |
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Generating Params File for water molecule by Ahmed Raslan » Thu, 2023-08-17 13:13 |
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392 |
by Ahmed Raslan Thu, 2023-08-17 13:13 |
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Failure to produce a cst file by biotech » Wed, 2022-10-26 11:17 |
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by biotech Wed, 2022-10-26 11:17 |
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Proper indexing of grafted residues by CCDEndsGraftMover by cttm4a1 » Wed, 2022-09-07 23:41 |
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by cttm4a1 Wed, 2022-09-07 23:41 |
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Interface scores comparison by NingNing » Tue, 2022-08-09 17:36 |
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395 |
by NingNing Tue, 2022-08-09 17:36 |
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[ WARNING ] missing an atom: 1 H that depends on a nonexistent polymer connection! by Jane_002 » Tue, 2023-08-08 21:07 |
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396 |
by Jane_002 Tue, 2023-08-08 21:07 |
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Rosettascript - change residue number and chain ID by cttm4a1 » Wed, 2022-09-14 23:40 |
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by cttm4a1 Wed, 2022-09-14 23:40 |
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How to add new Movers to Rosetta by mb0261 » Thu, 2022-06-30 10:48 |
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by mb0261 Thu, 2022-06-30 10:48 |
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Converting all residues to poly-Gly/Ala by jtpi6174 » Tue, 2023-05-09 14:14 |
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398 |
by jtpi6174 Tue, 2023-05-09 15:51 |
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Problems with ICOOR when generating polymer params file by liuwenxi » Tue, 2022-08-09 08:33 |
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by liuwenxi Tue, 2022-08-09 08:33 |
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RosettaDock-3.2 output by Zjq1998 » Wed, 2022-06-15 23:54 |
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by Zjq1998 Wed, 2022-06-15 23:54 |
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Error with sequence_tolerance.R processing the checkpoint files, *.ga.entities and *.ga.generations. by He Xiao » Mon, 2022-11-07 03:41 |
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by He Xiao Mon, 2022-11-07 04:10 |
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Grafting using antibody.mpi.linuxgccrelease , the modelled structure does not have constant region of the antibody. by SubhaK » Thu, 2023-01-26 21:29 |
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413 |
by rmoretti Mon, 2023-02-06 14:35 |
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N-Terminal Galactose by SebastianBB » Mon, 2022-11-21 08:33 |
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by SebastianBB Mon, 2022-11-21 08:33 |
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Error in rosetta_scripts.mpi.linuxgccrelease: double free or corruption (!prev): 0x0000000007697a90 by almeida85 » Thu, 2022-11-17 01:04 |
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417 |
by almeida85 Thu, 2022-11-17 01:04 |
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protein location change during Docking protocol by Hyun » Tue, 2022-03-29 19:53 |
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by Hyun Tue, 2022-03-29 19:53 |
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Get fasta from PDB script correction - Solved by ialvy » Tue, 2022-08-30 00:00 |
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419 |
by ialvy Tue, 2022-08-30 00:00 |
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Antigen-antibody modeling by aastha.pal » Mon, 2022-06-27 09:34 |
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by aastha.pal Mon, 2022-06-27 09:34 |
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Porblem with Rosetta Homology Modelling by Karthik » Wed, 2022-07-13 23:45 |
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by Karthik Wed, 2022-07-13 23:45 |
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Method for adding residues into PDB's w/ RosettaScripts. by Wexter300 » Wed, 2023-03-15 13:07 |
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433 |
by rmoretti Thu, 2023-03-16 11:46 |
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GeneralizedKIC side chain closure. by almeida85 » Mon, 2022-09-19 06:13 |
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by almeida85 Mon, 2022-09-19 07:22 |
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Error when trying to use xml script to design PDB by Wexter300 » Fri, 2023-02-24 13:29 |
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443 |
by rmoretti Fri, 2023-02-24 13:58 |
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Loop modeling by Robertofg » Tue, 2022-11-22 00:34 |
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by Robertofg Tue, 2022-11-22 00:34 |
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Ensemble file required for both partners with docking prepack protocol by katherinemccoy » Tue, 2022-03-29 14:26 |
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449 |
by katherinemccoy Tue, 2022-03-29 14:26 |
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Predicting structure of protein after a few mutations by Delfosse57 » Thu, 2022-12-01 20:40 |
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by Delfosse57 Thu, 2022-12-01 20:40 |
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Question about remodelling by tonycheng1688 » Mon, 2022-04-25 13:51 |
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by tonycheng1688 Mon, 2022-04-25 13:51 |
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Prepacking crashing using metalloprotein by mb0261 » Tue, 2022-12-06 10:16 |
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454 |
by mb0261 Tue, 2022-12-06 10:16 |
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Structure Prediction of protein mutant using relax by Delfosse57 » Tue, 2023-01-10 13:26 |
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455 |
by JW_24 Tue, 2023-01-24 04:55 |
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What should I do to lower down the fa_sol scores? by JasonIsaac » Mon, 2022-12-05 18:57 |
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by JasonIsaac Mon, 2022-12-05 18:57 |
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Designing Feasible Backbones by csvajda » Sat, 2022-08-13 08:08 |
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462 |
by csvajda Sat, 2022-08-13 08:08 |
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Calculating SAP score using RosettaScripts by varunmc99 » Fri, 2023-05-12 11:03 |
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463 |
by varunmc99 Fri, 2023-05-12 11:49 |
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Truncating a protein using rosetta by Wexter300 » Mon, 2023-02-13 12:05 |
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463 |
by Wexter300 Mon, 2023-02-13 13:04 |
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rosetta scripts to superimpose multiple segments by rlwoltz » Fri, 2022-04-29 15:15 |
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472 |
by rlwoltz Fri, 2022-04-29 15:15 |
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Calculating shape complementarity of ligand and protein by varunmc99 » Tue, 2023-01-17 11:29 |
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497 |
by rmoretti Mon, 2023-02-06 14:42 |
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Should all input structures to energy_based_clustering have an output pdb file? by Brian Wiley » Mon, 2023-01-30 20:42 |
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507 |
by Brian Wiley Tue, 2023-01-31 19:08 |
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Unexpected length of light chain FR1 by mgupta » Fri, 2022-12-09 01:03 |
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509 |
by mgupta Fri, 2022-12-09 01:03 |
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core.pack.rotamer_set.RotamerSet_: (0) Using simple Rotamer generation logic for pdb_NAP by to-qinbin@163.com » Wed, 2022-09-14 06:06 |
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514 |
by rmoretti Wed, 2022-09-14 09:14 |
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RuntimeError: CUDA out of memory. by ravi.thakkar » Tue, 2023-03-07 00:27 |
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523 |
by rmoretti Tue, 2023-03-07 08:18 |
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protein binder interface design error by guowuchen » Thu, 2022-06-23 04:43 |
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528 |
by guowuchen Thu, 2022-06-23 04:43 |
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Sequence symmetry during FastDesign for repeat protein design by cttm4a1 » Tue, 2022-09-06 21:02 |
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546 |
by rmoretti Wed, 2022-09-07 09:19 |
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Design strategy - One chain at a time OR two chains together? by tlopes » Wed, 2022-01-05 18:19 |
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548 |
by tlopes Wed, 2022-01-05 18:19 |
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Why are 'fa_rep' and 'fa_intra_rep' higher in 'ref2015_soft.wts' than in 'ref2015.wts'? by JW_24 » Tue, 2023-01-24 04:40 |
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553 |
by JW_24 Tue, 2023-01-24 14:52 |
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Unrecognized D-Leu name / C-terminal ACE by almeida85 » Thu, 2022-08-11 07:43 |
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553 |
by almeida85 Fri, 2022-08-12 05:56 |
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SnugDock or RosettaDock for HDX-MS data by hanzhiz » Thu, 2021-12-16 09:18 |
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576 |
by hanzhiz Thu, 2021-12-16 09:18 |
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Multiple Relax runnings by mb0261 » Sat, 2022-08-27 05:42 |
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579 |
by rmoretti Tue, 2022-09-06 08:22 |
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Using specific rotamers by sahn97 » Fri, 2022-08-26 13:45 |
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585 |
by rmoretti Fri, 2022-08-26 14:51 |
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clean_pdb_keep_ligand.py IndexError by to-qinbin@163.com » Sat, 2022-09-10 04:04 |
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589 |
by rmoretti Mon, 2022-09-12 06:58 |
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mol2genparams.py script dependencies by dhirajks » Wed, 2022-06-08 16:46 |
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594 |
by matteoferla Thu, 2022-06-09 14:41 |
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Help with file in article Kemp elimination catalysts by computational enzyme design by Wenithor » Sat, 2021-10-09 07:23 |
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596 |
by Wenithor Sat, 2021-10-09 07:23 |
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Error when using rna_denovo in TACC stampede2 HPC by lsong2 » Thu, 2021-11-18 10:31 |
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598 |
by lsong2 Thu, 2021-11-18 10:31 |
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PDB weird to PDB rosetta friendly by jpfuenzalidawx » Fri, 2022-09-02 04:43 |
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601 |
by rmoretti Tue, 2022-09-06 08:13 |
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mpi_MSD for antibody design by hanzhiz » Thu, 2021-12-16 09:32 |
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604 |
by hanzhiz Thu, 2021-12-16 09:32 |
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Generate template parameter file for a polymer by anarob » Fri, 2022-06-10 11:05 |
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611 |
by matteoferla Fri, 2022-06-17 10:38 |
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total_score changes when decomposing bb hbonds ref2015 by Liviu Copoiu » Mon, 2022-10-31 15:40 |
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625 |
by Liviu Copoiu Mon, 2022-10-31 16:03 |
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Run protein-protein docking parallelly by mpi by Zehui Zhou » Thu, 2023-02-02 06:23 |
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628 |
by Zehui Zhou Fri, 2023-02-03 05:51 |
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RMSD filter by Soler » Sat, 2022-01-15 22:09 |
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632 |
by Soler Sat, 2022-01-15 22:09 |
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RosettaDock - protonation states by LWilliamson » Tue, 2023-08-15 08:15 |
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648 |
by nannemdp Thu, 2023-08-24 08:21 |
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Global ligand docking with Rosetta script and PyRosetta by tisozaki » Tue, 2021-12-14 17:16 |
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651 |
by tisozaki Tue, 2021-12-14 17:16 |
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ShapeSimilarity, ElectrostaticSimilarity (RosettaSurf) by Ken » Mon, 2022-05-23 07:16 |
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652 |
by ajasja Mon, 2022-05-23 07:19 |
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Adding NCAA with Metal Ion by MustafaBughio » Mon, 2022-11-28 15:07 |
1 |
652 |
by JasonIsaac Mon, 2022-12-05 18:41 |
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Obtain score during prediction by CameronJA » Mon, 2021-06-14 16:12 |
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652 |
by CameronJA Mon, 2021-06-14 16:12 |
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Error with options -dunbrack_prob_buried_semi and -dunbrack_prob_nonburied_semi by SamuelGong » Fri, 2023-01-27 06:20 |
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653 |
by rmoretti Mon, 2023-01-30 08:04 |
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pose.energies().total_enegies().show_nonzero() changes after packer is applied by Liviu Copoiu » Mon, 2022-11-07 16:51 |
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653 |
by Liviu Copoiu Tue, 2022-11-08 10:43 |
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Obtaining all PDB IDs containing similar binding sites for a specific ligand by Antonia » Wed, 2021-06-16 12:30 |
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654 |
by Antonia Wed, 2021-06-16 12:30 |
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SecundaryStructure Filter by Soler » Sat, 2021-11-20 23:41 |
0 |
654 |
by Soler Sat, 2021-11-20 23:41 |
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Score function in protein-protein docking with constrains by Zehui Zhou » Mon, 2023-02-06 03:31 |
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657 |
by Zehui Zhou Wed, 2023-02-15 05:40 |
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Problem with 'AddEncounterConstraintMover' by mb0261 » Tue, 2022-06-28 10:00 |
1 |
662 |
by rmoretti Tue, 2022-06-28 11:06 |
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Flex-pep-docking (ab-initio mode) by ate » Wed, 2021-06-16 19:19 |
0 |
663 |
by ate Wed, 2021-06-16 19:19 |
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Different dG_separated from RAbD and InterfaceAnalyzer by brubin » Mon, 2022-12-19 13:58 |
2 |
663 |
by brubin Tue, 2022-12-20 13:26 |
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